Package 'FSAdata'

Description

Characteristics of a sample of West African rivers.

Format

A data frame of 39 observations on the following 6 variables:

river

name of the river.

richness

fish species richness.

surface

surface area in $km^2$.

disch

mean annual discharge in $\frac{m^3}{s}$.

vegdiv

terrestrial vegetation diversity (Shannon's diversity index of vegetation in drainage).

forperc

percentage of drainage area covered by lowland rain forest.

Topic(s)

• Other

Source

From Table 1 in Hugueny, B. 1989. West African rivers as biogeographic islands: species richness of fish communities. Oecologia 79:236-243. CSV file

Examples

data(AfricanRivers)
str(AfricanRivers)
head(AfricanRivers)

Description

Ages and lengths of Araucanian Herring (Strangomera bentincki) from Chilean waters.

Format

A data frame with the following 2 variables:

age

Age in years.

len

Total length (to nearest 0.5 cm).

Topic(s)

• Growth

• Seasonal Growth

• von Bertalanffy

• Somers model

Source

From figure 9 of Cubillos, L.A., D.F. Arcosa, D.A. Bucareya, M.T. Canalesa. 2001. Seasonal growth of small pelagic fish off Talcahuano, Chile (37S, 73W): A consequence of their reproductive strategy to seasonal upwelling? Aquatic Living Resources, 14:115-124. CSV file

Examples

data(AHerringChile)
str(AHerringChile)
head(AHerringChile)
plot(len~age,data=AHerringChile)

Description

Ages of Alewife (Alosa pseudoharengus) assessed from otoliths and scales.

Format

A data frame of 104 observations on the following 2 variables:

otoliths

Age assigned from examination of otoliths

scales

Age assigned from examination of scales

Topic(s)

• Age Comparison

• Age Precision

• Age Bias

• Ageing Error

Source

From Table 1A of Hoenig, J.M., M.J. Morgan, and C.A. Brown. 1995. Analysing differences between two age determination methods by tests of symmetry. Canadian Journal of Fisheries And Aquatic Systems, 52:364-368. Originally from O'Gorman, R., D.H. Barwick, and C.A. Bowen. 1987. Discrepancies between ages determined from scales and otoliths for alewives from the Great Lakes. pp. 203-210 In. Summerfelt, R.C. and G.E. Hall (Eds.) Age and Growth of Fish. Iowa State University Press, Ames, IA. CSV file

Examples

data(AlewifeLH)
str(AlewifeLH)
head(AlewifeLH)
plot(scales~otoliths,data=AlewifeLH)
xtabs(~otoliths+scales,data=AlewifeLH)

Description

Ages (in months) and lengths of Anchoveta (Engraulis ringens) from central Chilean waters.

Format

A data frame with 207 observations of the following 3 variables:

age.mon

Age in months.

tl.cm

Total length (cm).

cohort

Year-class.

Topic(s)

• Growth

• Seasonal Growth

• von Bertalanffy

• Somers model

Source

Directly from the authors of Cubillos, L.A., D.F. Arcosa, D.A. Bucareya, M.T. Canalesa. 2001. Seasonal growth of small pelagic fish off Talcahuano, Chile (37S, 73W): A consequence of their reproductive strategy to seasonal upwelling? Aquatic Living Resources 14:115-124. Data were in Figure 9. CSV file

Examples

data(AnchovetaChile)
str(AnchovetaChile)
head(AnchovetaChile)
AnchovetaChile$age <- AnchovetaChile$age.mon/12
plot(tl.cm~age,data=AnchovetaChile)

Description

Catch-at-age for Suwanee (Micropterus notius) and Largemouth Bass (Micropterus salmoides) collected from several lakes in Florida, 2001-2002.

Format

A data frame with 39 observations on the following 5 variables.

species

Species of bass (Suwanee and Largemouth)

loc

Location (SantaFe, Wacissa, Withlacoochee, Ochlockonee)

year

Year (2001, 2002)

num

Number of fish captured

age

Age of fish at capture

Topic(s)

• Total mortality

• Catch curve

Source

From Figure 2 of Bonvechio, T.F., M.S. Allen, and R.L. Cailteux. 2005. Relative Abundance, Growth, and Mortality of Suwannee Bass in Four Florida Rivers. North American Journal of Fisheries Management 25:275-283. CSV file

Examples

data(BassFL)
str(BassFL)
head(BassFL)
op <- par(mfrow=c(3,2),mar=c(3,3,2,1),mgp=c(1.75,0.5,0),tcl=-0.2,pch=19)
plot(log(num)~age,data=BassFL,subset=(loc=="SantaFe" & year==2001 & species=="Suwanee"),
  ylim=c(0,max(log(num))),main="Suwanee, Santa Fe")
points(log(num)~age,data=BassFL,subset=(loc=="SantaFe" & year==2002 & species=="Suwanee"),col="red")
legend("topright",legend=c("2001","2002"),col=c("black","red"),pch=19)
plot(log(num)~age,data=BassFL,subset=loc=="Wacissa" & year==2002 & species=="Suwanee",
 ylim=c(0,max(log(num))),main="Suwanee, Wacissa")
plot(log(num)~age,data=BassFL,subset=loc=="Withlacoochee" & year==2002 & species=="Suwanee",
 ylim=c(0,max(log(num))),main="Suwanee, Withlacoochee")
plot(log(num)~age,data=BassFL,subset=(loc=="SantaFe" & year==2001 & species=="Largemouth"),
 ylim=c(0,max(log(num))),main="Largemouth, Santa Fe")
points(log(num)~age,data=BassFL,subset=(loc=="SantaFe" & year==2002 & species=="Largemouth"),
 col="red")
legend("topright",legend=c("2001","2002"),col=c("black","red"),pch=19)
plot(log(num)~age,data=BassFL,subset=loc=="Ochlockonee" & year==2001 & species=="Largemouth",
 ylim=c(0,max(log(num))),main="Largemouth, Ochlockonee")
points(log(num)~age,data=BassFL,subset=(loc=="Ochlockonee" & year==2002 & species=="Largemouth"),
 col="red")
legend("topright",legend=c("2001","2002"),col=c("black","red"),pch=19)
par(op)

Description

Fish information from samples collected from Big Hill Reservoir, KS, in May, 2014.

Format

A data frame with 266 observations on the following 6 variables.

UID

Unique sample identification number (see BGHRsample)

fishID

Unique fish identification number

specCode

Numeric code for each species (116=“Smallmouth Bass”, 118=“Largemouth Bass”, and 122=“Bluegill”)

length

Total length (mm)

weight

Weight (g)

count

Number of fish sampled of that species and length

Topic(s)

• Data Manipulation

Note

Used in the Introductory Fisheries Analyses with R book.

Source

Obtained directly from Ben Neely. CSV file

See Also

See BGHRfish for individual fish collected in these samples.

Examples

data(BGHRfish)
str(BGHRfish)
head(BGHRfish)

Description

Information for each electrofishing sample from Big Hill Reservoir, KS, in May, 2014.

Format

A data frame with 20 observations on the following 4 variables.

UID

Unique sample identification number

date

Data sample was collected

loc

Location code for where the sample was collected

effort

Effort (minutes) expended for the sample

Topic(s)

• Data Manipulation

Note

Used in the Introductory Fisheries Analyses with R book.

Source

Obtained directly from Ben Neely. CSV file

See Also

See BGHRfish for individual fish collected in these samples.

Examples

data(BGHRsample)
str(BGHRsample)
head(BGHRsample)

Description

Biological data (lengths, weights, ages (from otoliths), and sex) for Black Drum (Pogonias cromis) from Virginia waters of the Atlantic Ocean, 2001.

Format

A data frame with 141 observations on the following 9 variables.

year

Year of capture (all 2001)

agid

Unique identification number

spname

Species name (all “Black Drum”)

month

Month of capture

day

Day of capture

weight

Weight (lbs) – most are missing

tl

Total length (mm)

sex

Sex (female, male, and unknown)

otoage

Age (yrs; from otoliths)

Topic(s)

• Growth

• von Bertalanffy

• Weight-Length

Note

Used in the Introductory Fisheries Analyses with R book.

Source

Obtained directly from the Virginia Marine Resources Commission via Hank Liao. CSV file

Examples

data(BlackDrum2001)
str(BlackDrum2001)
head(BlackDrum2001)
plot(tl~otoage,data=BlackDrum2001)

Description

Egg deposition and relative abundance of age-3 Lake Huron Bloaters (Coregonus hoyi) by year, 1981-1996.

Format

A data frame of 16 observations on the following 3 variables:

year

Year of data (1981-1996)

eggs

Millions of eggs deposited

age3

Relative abundance of age-3 fish

Topic(s)

• Stock-Recruit

• Recruitment

Source

From (approximately) Figure 7 of Schaeffer, J.S. 2004. Population dynamics of bloaters Coregonus hoyi in Lake Huron, 1980-1998. Ann Zool Fennici. 41:271-279. CSV file

Examples

data(BloaterLH)
str(BloaterLH)
head(BloaterLH)
op <- par(mfrow=c(1,2),pch=19)
plot(eggs~year,data=BloaterLH,type="l")
plot(eggs~age3,data=BloaterLH)
par(op)

Description

Ages and total lengths of Blue Catfish (Ictalurus furcatus) collected form the Wilson Reservoir on the Tennessee River, AL.

Format

A data frame with 119 observations on the following 2 variables.

age

Age (from otoliths)

tl

Total length (mm)

Topic(s)

• Growth

• von Bertalanffy

Source

From (approximately) Figure 2 of Maceina, M.J. 2007. Use of piecewise nonlinear models to estimate variable size-related mortality rates. North American Journal of Fisheries Management 27:971-977. CSV file

Examples

data(BlueCatfish)
str(BlueCatfish)
head(BlueCatfish)
plot(tl~age,data=BlueCatfish)

Description

Catch and effort data for a population of male Blue Crabs (Callinectes sapidus) for a 12-week period.

Format

A data frame with 12 observations on the following 2 variables.

catch

A numeric vector of pounds of Blue Crab caught.

effort

A numeric vector of lines used per day to catch Blue Crab.

Topic(s)

• Population size

• Abundance

• Depletion

• Leslie method

• DeLury method

• Catchability

Source

From Fischler, K.J. 1965. The use of catch-effort, catch-sampling, and tagging data to estimate a population of blue crabs. Transactions of the American Fisheries Society 94:287-310. CSV file

Examples

data(BlueCrab)
str(BlueCrab)
BlueCrab

Description

Ages assigned to Bluefish (Pomatomus saltatrix) otoliths by two readers.

Format

A data frame with 445 observations on the following 2 variables.

r1

Ages assigned by the first reader

r2

Ages assigned by the second reader

Topic(s)

• Age Comparison

• Age Precision

• Age Bias

• Ageing Error

Source

From Figure 2 in Chapter 3 (Bluefish) of the VMRC Final Report on Finfish Ageing, 2003 by the Center for Quantitative Fisheries Ecology at Old Dominion University. CSV file

Examples

data(BluefishAge)
str(BluefishAge)
head(BluefishAge)
plot(r1~r2,data=BluefishAge)

Description

Length-at-marking and recapture and time-at-large for Bluegill (Lepomis macrochirus) originally captured in Spring 2010 from Inch Lake, Wisconsin.

Format

A data frame with 61 observations on the following 5 variables:

tag

Unique Floy tag number.

lenMark

length (mm) at tagging.

lenRecap

Length (mm) at recapture.

deltaLen

Change in length (mm).

deltaTime

Time-at-large (yrs).

Topic(s)

• Growth

• von Bertalanffy

• Fabens method

Source

These unpublished data are from Derek H. Ogle, Northland College. Do not use for other than educational purposes without permission from the source. CSV file

Examples

data(BluegillIL)
str(BluegillIL)
head(BluegillIL)
plot((lenRecap-lenMark)~deltaTime,data=BluegillIL)

Description

Lengths (standard, fork, and total) and weights for Bluegill (Lepomis macrochirus) collected from Lake Mary, Minnesota.

Format

A data frame with 100 observations on the following 5 variables:

sernum

Unique serial number

sl

Standard length (mm)

fl

Fork length (mm)

tl

Total length (mm)

wght

Weight (g)

Topic(s)

• Weight-Length

• Length Conversion

• Length Frequency

Source

CSV file

See Also

lakemary in alr3 for a different sample of Bluegill from Lake Mary that has length and age.

Examples

data(BluegillLM)
str(BluegillLM)
head(BluegillLM)
op <- par(mfrow=c(3,2),pch=19)
plot(wght~sl,data=BluegillLM)
plot(wght~fl,data=BluegillLM)
plot(wght~tl,data=BluegillLM)
plot(tl~fl,data=BluegillLM)
plot(tl~sl,data=BluegillLM)
plot(fl~sl,data=BluegillLM)
par(op)

Description

Total lengths for a subsample from 144 Bluntnose Minnows (Pimephales notatus) from Inch Lake, WI in May, 2007.

Format

A data frame of 25 observations on the following 3 variables:

netID

a netID factor (all 41)

species

species name (all Bluntnose)

tl

total length (inches to nearest 0.1)

Topic(s)

• Length Frequency

• Length Expansion

• Size Structure

• PSD

Source

Derek H. Ogle, personal collection. CSV file

See Also

InchLake1, InchLake2.

Examples

data(BluntnoseIL1)
str(BluntnoseIL1)
head(BluntnoseIL1)

Description

Ages and lengths of Australian Bonito (Sarda australis).

Format

A data frame with the following 3 variables:

sex

Sex (Female, Juvenile, Male).

age

Age in decimal years.

fl

Total length (to nearest 0.1 cm).

Topic(s)

• Growth

• Seasonal Growth

• von Bertalanffy

• Somers model

Source

From figure 3 of Stewart, J., W. Robbins, K. Rowling, A. Hegarty, and A. Gould. 2013. A multifaceted approach to modelling growth of the Australian bonito, Sarda australis (Family Scombridae), with some observations on its reproductive biology. Marine and Freshwater Research 64:671-678. CSV file

Examples

data(Bonito)
str(Bonito)
head(Bonito)
plot(fl~age,data=Bonito)

Description

Stock and recruitment data for Brook Trout (Salvelinus fontinalis) from Ball Creek, NC, 1991-2004.

Format

A data frame with 10 observations on the following 2 variables.

adult

a numeric vector giving autumn adult density (number per square meter)

yoy

a numeric vector giving autumn YOY density (number per square meter) in following year

Topic(s)

• Stock-Recruit

• Recruitment

Note

The authors fit a linear model to the stock-recruit relationship.

Source

From (approximately) Figure 5 in Grossman, G.D., R.E. Ratajczak, C.M. Wagner, and J.T. Petty. 2010. Dynamics and regulation of the southern brook trout (Salvelinus fontinalis) population in an Appalachian stream. Freshwater Biology 55:1494-1508. CSV file

Examples

data(BrookTroutNC)
str(BrookTroutNC)
head(BrookTroutNC)
plot(adult~yoy,data=BrookTroutNC)

Description

Catches in removal events for Brook Trout (Salvelinus fontinalis) in two streams in the the Nashwaak Experimental Watersheds Project on multiple dates.

Format

A data frame of 16 observations on the following 7 variables:

stream

Stream (UNM=Upper Narrows Mountain Brook and Hay=Hyaden Brook).

section

Section of stream. See source.

date

Data of collections.

first

Catch on the first removal pass.

second

Catch on the second removal pass.

third

Catch on the third removal pass.

fourth

Catch on the fourth removal pass.

Topic(s)

• Population size

• Abundance

• Removal

Source

From Table 1 in Schnute, J. 1983. A new approach to estimating populations by the removal method. Canadian Journal of Fisheries and Aquatic Sciences, 40:2153-2169. CSV file

See Also

See BrookTroutNEWP1 for these data AND the results from Schnute (1983).

Examples

data(BrookTroutNEWP)

## extract data for one stream, section, and date (e.g., 3rd row)
BrookTroutNEWP[3,]

Description

Catches in removal events for Brook Trout (Salvelinus fontinalis) in two streams in the the Nashwaak Experimental Watersheds Project on multiple dates. Includes results from Schnute (1983).

Format

A data frame of 16 observations on the following 7 variables:

sample

A unique identified for the sample.

stream

Stream (UNM=Upper Narrows Mountain Brook and Hay=Hyaden Brook).

section

Section of stream. See source.

date

Data of collections.

first

Catch on the first removal pass.

second

Catch on the second removal pass.

third

Catch on the third removal pass.

fourth

Catch on the fourth removal pass.

Moran.N

Schnute (1983) estimate of N using the Moran (1951) method.

Moran.NLCI

Schnute (1983) estimate of N 95% LCI using the Moran (1951) method.

Moran.NUCI

Schnute (1983) estimate of N 95% UCI using the Moran (1951) method.

Moran.p

Schnute (1983) estimate of p using the Moran (1951) method.

Moran.LH

Schnute (1983) negative log likelihood using the Moran (1951) method.

Schnute.N

Schnute (1983) estimate of N.

Schnute.NLCI

Schnute (1983) estimate of N 95% LCI.

Schnute.NUCI

Schnute (1983) estimate of N 95% UCI.

Schnute.p1

Schnute (1983) estimate of p1.

Schnute.p

Schnute (1983) estimate of p.

Schnute.LH

Schnute (1983) negative log-likelihood.

ChiSq

Schnute (1983) chi-square from likelihood ratio comparison of Moran and Schnute methods.

Topic(s)

• Population size

• Abundance

• Removal

Source

From Tables 1-3 in Schnute, J. 1983. A new approach to estimating populations by the removal method. Canadian Journal of Fisheries and Aquatic Sciences, 40:2153-2169. CSV file

See Also

See BrookTroutNEWP for only the data (note the results from Schnute (1983)).

Examples

data(BrookTroutNEWP1)

## extract data for one stream, section, and date (e.g., 3rd row)
BrookTroutNEWP1[3,]

Description

The number of Brook Trout (Salvelinus fontinalis) marked, captured, and recaptured for several years on Meach Lake in central Ontario.

Format

A data frame with 7 observations on the following 5 variables.

year

Year of the collection

mark

Total number of fish marked on the marking run

catch

Total number of fish caught on the recapture run

recap

Total number of previously marked fish in the recapture run

correction

Number of age-1 fish to be added to final estimated based on mark-recapture to correct for gear selectivity of age-1 fish

Topic(s)

• Population Size

• Abundance

• Mark-Recapture

• Capture-Recapture

• Petersen

Source

From Table 1 of Curry, R.A., C. Brady, and G.E. Morgan. 2003. Effects of Recreational Fishing on the Population Dynamics of Lake-Dwelling Brook Trout. North American Journal of Fisheries Management 23:35-47. CSV file

Examples

data(BrookTroutOnt)
str(BrookTroutOnt)
head(BrookTroutOnt)

Description

Single census mark-recapture data for Brown Trout (Salmo trutta) from Valley Creek, MN captured in April, 1988. Length of trout was recorded so that abundance estimated can be made by length categories.

Format

A data frame with 1014 observations on the following 3 variables.

len

A numeric vector of total length measurements (cm)

sample

A factor variable representing the sample in which the fish was captured. The marking run is labelled with first and the recapture run is labelled with second

recap

A factor variable representing whether the fish was a “recap”ture in the second sample (YES) or not (NO)

Topic(s)

• Population Size

• Abundance

• Mark-Recapture

• Capture-Recapture

• Petersen

Source

Obtained directly from Tom Kwak, North Carolina Cooperate Unit at North Carolina State University and part of the data published in Kwak, T.J. and T.F. Waters. 1997. Trout production dynamics and water quality in Minnesota streams. Transactions of the American Fisheries Society, 126:35-48. CSV file

Examples

data(BrownTroutVC1)
str(BrownTroutVC1)
head(BrownTroutVC1)
hist(BrownTroutVC1$len,main="")

Description

Stock and recruitment data for Barndoor Skate (Dipturus laevis) from Georges Bank for three seasons.

Format

A data frame with 31 observations on the following 4 variables.

spawners

a numeric vector giving CPUE of spawning fish

recruits

a numeric vector containing the CPUE of recruits

year

a numeric vector containing the year of the survey (recruits have been properly lagged (3 years) to match with spawners)

season

a factor containing the season of capture (fall, spring, winter)

Topic(s)

• Stock-Recruit

• Recruitment

Note

Only years within each season where more than one spawner and more than one recruit were captured were recorded. The authors noted that the Beverton-Holt model could NOT be fit to the winter data.

Source

Estimated (using digitize) from figures 4-6 in Gedamke, T., J.M. Hoenig, W.D. DuPaul, and J.A. Musick. 2009. Stock-recruitment dynamics and the maximum population growth rate of the barndoor skate on Georges Bank. North American Journal of Fisheries Management 29:512-526. CSV file

Examples

data(BSkateGB)
str(BSkateGB)
head(BSkateGB)
op <- par(mfrow=c(3,2),pch=19)
plot(recruits~year,data=BSkateGB,subset=season=="fall",type="b",main="fall")
plot(recruits~spawners,data=BSkateGB,subset=season=="fall",main="fall")
plot(recruits~year,data=BSkateGB,subset=season=="spring",type="b",main="spring")
plot(recruits~spawners,data=BSkateGB,subset=season=="spring",main="spring")
plot(recruits~year,data=BSkateGB,subset=season=="winter",type="b",main="winter")
plot(recruits~spawners,data=BSkateGB,subset=season=="winter",main="winter")
par(op)

Description

Lengths and weights of Bull Trout (Salvelinus confluentis) from two Rocky Mountain lakes in Alberta, CAN and two eras.

Format

A data frame with 137 observations on the following 3 variables:

fl

Fork length (mm)

mass

Wet mass (g)

era

Era of collection (1977-79 and 2001)

Topic(s)

• Weight-Length

• Length Frequency

Note

The historical (1977-1980) era samples were from before restrictive sportfishing regulatory regimes were implemented (in the 1990s) that led to changes in abundance and population structure of bull trout.

Source

From (approximately) Figure 2 of Parker, B.R., D.W. Schindler, F.M. Wilhelm, and D.B. Donald. 2007. Bull trout population responses to reductions in angler effort and retention limits. North American Journal of Fisheries Management 27:848-859. CSV file

Examples

data(BullTroutRML1)
str(BullTroutRML1)
head(BullTroutRML1)
op <- par(mfrow=c(1,2),pch=19)
plot(mass~fl,data=BullTroutRML1,subset=era=="1977-79",main="1977-79")
plot(mass~fl,data=BullTroutRML1,subset=era=="2001",main="2001")
par(op)

Description

Assigned ages (from otoliths) and fork lengths of Bull Trout (Salvelinus confluentis) from two Rocky Mountain lakes in Alberta, CAN before and after a regulation change.

Format

A data frame with 96 observations on the following 4 variables:

age

Age (from otoliths).

fl

Fork length (mm).

lake

Lake (Harrison and Osprey).

era

Era of collection (1977-80 and 1997-01). See details.

Topic(s)

• Growth

• Von Bertalanffy growth model

Note

The historical (1977-1980) era samples were from before restrictive sportfishing regulatory regimes were implemented (in the 1990s) that led to changes in abundance and population structure of bull trout.

Source

From (approximately) Figure 2 of Parker, B.R., D.W. Schindler, F.M. Wilhelm, and D.B. Donald. 2007. Bull trout population responses to reductions in angler effort and retention limits. North American Journal of Fisheries Management 27:848-859. CSV file

Examples

data(BullTroutRML2)
str(BullTroutRML2)
head(BullTroutRML2)
op <- par(mfrow=c(2,2),pch=19)
plot(fl~age,data=BullTroutRML2,subset=lake=="Harrison" & era=="1977-80",main="Harrison, 1977-80")
plot(fl~age,data=BullTroutRML2,subset=lake=="Harrison" & era=="1997-01",main="Harrison, 1997-2001")
plot(fl~age,data=BullTroutRML2,subset=lake=="Osprey" & era=="1977-80",main="Osprey, 1977-80")
plot(fl~age,data=BullTroutRML2,subset=lake=="Osprey" & era=="1997-01",main="Osprey, 1997-2001")
par(op)

Description

Catch-at-age (actually carcasses-at-age) for Bull Trout (Salvelinus confluentis) in Trestle Creek, ID.

Format

A data frame with 6 observations on the following 2 variables.

age

A numeric vector of assigned ages (from otoliths).

carcasses

A numeric vector of number of carcasses found in and along Trestle Creek.

Topic(s)

• Mortality

• Catch curve

Source

From (approximately) Figure 4a in Downs, C.C., D. Horan, E. Morgan-Harris, and R. Jakubowski. 2006. Spawning demographics and juvenile dispersal of an adfluvial bull trout population in Trestle Creek, Idaho. North American Journal of Fisheries Management 26:190-200. CSV file

Examples

data(BullTroutTC)
str(BullTroutTC)
head(BullTroutTC)
plot(log(carcasses)~age,data=BullTroutTC)

Description

Ages, lengths, and maturity for female Cabezon (Scorpaenichthys marmoratus) from Newport and Depoe Bay, Oregon.

Format

A data frame with 525 observations on the following 5 variables.

date

Date fish was collected

length

Total length (cm)

age

Otolith age

maturity

Maturity state (Immature or Mature)

stage

Stage of maturity (1:Immature, 2:Maturing, 3:Mature, 4:Fertilized, 5:Ripe, 6:Spent, 7:Resting)

Topic(s)

• Maturity

• Growth

• von Bertalanffy

Source

Actual data obtained directly (from Bob Hanna) from Hannah, R.W, M.T.O. Blume, and J.E. Thompson. 2009. Length and age at maturity of female yelloweye rockfish (Sebastes rubberimus) and cabezon (Scorpaenichthys marmoratus) from Oregon waters based on histological evaluation of maturity. Oregon Department of Fish and Wildlife, Information Reports 2009-04. [Was (is?) from http://www.dfw.state.or.us/mrp/publications/docs/Info200904_YlwEyeRF_Maturity.pdf.] CSV file

Examples

data(Cabezon)
str(Cabezon)
head(Cabezon)
op <- par(mfrow=c(2,2),pch=19)
plot(length~age,data=Cabezon,ylab="Total Length (cm)",xlab="Age")
hist(Cabezon$length,xlab="Total Length (cm)",main="")
tbl1 <- xtabs(~age+maturity,data=Cabezon)
(ptbl1 <- prop.table(tbl1,margin=1))
plot(ptbl1[,2]~as.numeric(row.names(ptbl1)),type="l",xlab="Age",ylab="Proportion Mature")
tbl2 <- xtabs(~length+maturity,data=Cabezon)
(ptbl2 <- prop.table(tbl2,margin=1))
plot(ptbl2[,2]~as.numeric(row.names(ptbl2)),type="l",xlab="Length",ylab="Proportion Mature")
par(op)

Description

Instantaneous growth rates (percent change per day) for body growth and two calcified ageing structures from age 1-4 female Northern Pike (Esox lucius) from Wickett Lake, Ontario.

Format

A data frame with 12 observations on the following 4 variables.

day

A numeric vector of days since the beginning of the study.

body

A numeric vector of instantaneous growth rates (percent change per day) for body growth.

cleithrum

A numeric vector of instantaneous growth rates (percent change per day) for cleithra.

scale

A numeric vector of instantaneous growth rates (percent change per day) for scales.

Topic(s)

• Other

Source

From Figure 8 of Casselman, J.M. 1990. Growth and relative size of calcified structures of fish. Transactions of the American Fisheries Society. 119:673-688. CSV file

Examples

data(Casselman1990)

# recreation of Casselman's (199) Figure 8.
p <- c(19,17,15); clr <- c("black","red","blue"); l <- 1
with(Casselman1990,
     matplot(day,cbind(body,cleithrum,scale),type="b",lwd=2,pch=p,col=clr,lty=l,
             ylab="Instantaneous Growth Rate",xaxt="n",xlab="")
)
axis(1,at=c(0,31,60,91,121,152,182,213,243,274,304,335,365),tick=TRUE,labels=FALSE)
axis(1,at=c(15,46,76,107,137,168,198,229,260,291,321,352),tick=FALSE,
     labels=c("Jan","Feb","Mar","Apr","May","Jun","Jul","Aug","Sep","Oct","Nov","Dec"))
legend("topleft",legend=c("Body","Cleithrum","Scale"),pch=p,col=clr,lty=l,lwd=2)

Description

Catch-at-age of Channel Catfish (Ictalurs puncatatus) from two sections of the Platte River, NB, in 2007 and 2008.

Format

A data frame of 26 observations on the following 3 variables:

age

Age (years) assigned from pectoral spines

catch

Number of captured fish with baited hoopnets and electrofishing

loc

Location of collection (Central and Lower)

Topic(s)

• Mortality

• Catch curve

Note

Used in the Introductory Fisheries Analyses with R book.

Source

From (approximately) Figure 3-14 in Barada, T.J. 2009. Catfish population dynamics in the Platte River, Nebraska. Master's thesis, University of Nebraska, Lincoln, NE. CSV file

Examples

data(CCatfishNB)
str(CCatfishNB)
head(CCatfishNB)
op <- par(mfrow=c(1,2),pch=19)
plot(log(catch)~age,data=CCatfishNB,subset=loc=="Central",main="Central")
plot(log(catch)~age,data=CCatfishNB,subset=loc=="Lower",main="Lower")
par(op)

Description

Stock and recruitment data for Klamath River Chinook Salmon (Oncorhynchus tshawytscha), 1979-2000 brood years.

Format

A data frame with 27 observations on the following 3 variables.

brood.year

a numeric vector of brood years

spawners

a numeric vector giving number of spawning fish

recruits

a numeric vector containing the number of recruits

Topic(s)

• Stock-Recruit

• Recruitment

Source

From Pacific Fishery Management Council 2006 report. CSV file

Examples

data(ChinookKR)
str(ChinookKR)
head(ChinookKR)
op <- par(mfrow=c(1,2),pch=19)
plot(recruits~brood.year,data=ChinookKR,type="l")
plot(recruits~spawners,data=ChinookKR)
par(op)

Description

Lengths, weights, and sex for Cisco (Coregonus artedii) from Trout Lake, WI, 1981-2006. Fish were collected with a variety of gears.

Format

A data frame of 8594 observations on the following 8 variables:

lakeid

Lake name (all TR=Trout Lake)

year4

Year of capture

sampledate

Date of capture

gearid

Capture gear type

spname

Species name (all CISCO)

length

Total length (nearest mm) at capture

weight

Weight (nearest 0.1 or 1 g) at capture

sex

Sex (F=Female, I=Immature, M=Male)

Topic(s)

• Weight-Length

• Length Frequency

Source

Obtained from query to North Temperate Lakes LTER data portal at the University of Wisconsin Center for Limnology. CSV file

Examples

data(CiscoTL)
str(CiscoTL)
head(CiscoTL)
op <- par(mfrow=c(2,2),pch=19)
plot(weight~length,data=CiscoTL,subset=sex=="F",main="Female")
plot(weight~length,data=CiscoTL,subset=sex=="M",main="Male")
plot(weight~length,data=CiscoTL,subset=sex=="I",main="Immature")
par(op)

Description

Stock and recruitment data for Crappies from four reservoirs in Arkansas and Mississippi, USA.

Format

A data frame of 78 observations on the following 3 variables:

reservoir

Reservoir (Atkins, Nimrod, Okatibbee, Ross.Barnett)

stock

Number of age-1+ fish per hectare

recruits

Number of age-0 fish per hectare

Topic(s)

• Stock-Recruit

• Recruitment

Source

From (approximately) Figure 2 of Allen, M.S. and L.E. Miranda. 1998. An age-structured model for erratic crappie fisheries. Ecological Modeling 107:289-303. CSV file

Examples

data(CrappieARMS)
str(CrappieARMS)
head(CrappieARMS)
op <- par(mfrow=c(2,2),mar=c(3,3,2,1),mgp=c(1.75,0.5,0),tcl=-0.2,pch=19)
plot(recruits~stock,data=CrappieARMS,subset=(reservoir=="Atkins"),main="Atkins")
plot(recruits~stock,data=CrappieARMS,subset=(reservoir=="Nimrod"),main="Nimrod")
plot(recruits~stock,data=CrappieARMS,subset=(reservoir=="Okatibbee"),main="Okatibbee")
plot(recruits~stock,data=CrappieARMS,subset=(reservoir=="Ross.Barnett"),main="Ross Barnett")
par(op)

Description

Ages (subsample) and lengths (all fish) for Creek Chub (Semotilus atromaculatus).

Format

A data frame with 218 observations on the following 2 variables.

len

Total length (mm)

age

Assigned ages (yrs; from scales)

Details

As many as 10 fish per 10 mm length interval were sampled for age assignment with scales.

Topic(s)

• Age-Length Key

• Growth

Note

Used in the Introductory Fisheries Analyses with R book.

Source

Recreated (random digits were added to construct mm lengths from the cm length bins) from information in Box 15.2 of Quist, M.C., Pegg, M.A., and DeVries, D.R. 2012. Age and growth. In Zale, A.V., Parrish, D.L., and Sutton, T.M., editors. Fisheries Techniques, Third Edition, chapter 15, pages 677-731. American Fisheries Society, Bethesda, MD. CSV file

Examples

data(CreekChub)
str(CreekChub)
head(CreekChub)
xtabs(~age,data=CreekChub)
plot(len~age,data=CreekChub)

Description

The species targeted, number of fish harvested, and number of individuals harvesting that number of that species of fish from a large number of surveys on Minnesota Lakes, 1980-1996.

Format

A data frame of 14550 observations on the following 2 variables:

species

species of fish that was targeted.

harvest

number of fish of that species harvested by one angler.

Topic(s)

• Other

Source

From tables in Cook, M.F., T.J. Goeman, P.J. Radomski, J.A. Younk, and P.C. Jacobson. 2001. Creel limits in Minnesota: A proposal for change. Fisheries 26:19-26. CSV file

Examples

data(CreelMN)
str(CreelMN)
head(CreelMN)
levels(CreelMN$species)

## ONLY RUN IN INTERACTIVE MODE
## Not run: 
  require(FSA)
  wae <- filterD(CreelMN,species=="WAE")
  ( waetbl <- table(wae$harvest) )
  ( waeptbl <- prop.table(waetbl)*100 )
  ( waercum <- rcumsum(waeptbl) )
  op <- par(mfrow=c(1,2),mar=c(3.5,3.5,0.5,0.5),mgp=c(2,0.5,0))
  barplot(waeptbl,xlab="Number of Walleye Harvested",ylab="Percentage of Individuals")
  barplot(waercum,xlab="Minimum Number of Walleye Harvested",ylab="Percentage of Individuals")
  par(op)       
  ( ttlwae <- sum(wae$harvest) )                 
  wae$svd5 <- wae$harvest-5             # Used to determine the number of fish                
  xtabs(~svd5,data=wae)                 #   saved if limit was reduced to 5.
  ( svd5 <- sum(wae$svd5[wae$svd5>0]) ) #   Only sum positive numbers (i.e., saved)
  round(svd5/ttlwae*100,1)              # Show as a percentage

  wae$svd1 <- wae$harvest-1             # same but if reduced to 1 bag.
  xtabs(~svd1,data=wae)
  ( svd1 <- sum(wae$svd1[wae$svd1>0]) )
  round(svd1/ttlwae*100,1)

## End(Not run)

Description

Otolith age of Atlantic croaker (Micropogonias undulatus) from two readers.

Format

A data frame of 317 observations on the following 2 variables:

reader1

Age assigned by the first reader

reader2

Age assigned by the second reader

Topic(s)

• Age Comparison

• Age Precision

• Age Bias

• Ageing Error

Source

From Figure 2 in Chapter 1 (Atlantic Croaker) of the VMRC Final Report on Finfish Ageing, 1999 by the Center for Quantitative Fisheries Ecology at Old Dominion University. CSV file

Examples

data(Croaker1)
str(Croaker1)
head(Croaker1)
plot(reader2~reader1,data=Croaker1)
xtabs(~reader1+reader2,data=Croaker1)

Description

Assigned ages (by otoliths), total lengths, and sexes of Atlantic Croaker (Micropogonias undulatus).

Format

A data frame of 318 observations on the following 3 variables:

age

Otolith age-at-capture (years).

tl

Total length (nearest mm) at capture.

sex

Sex of the fish (M=male and F=female).

Topic(s)

• Growth

• von Bertalanffy

Source

From Figure 4 in Chapter 1 (Atlantic Croaker) of the VMRC Final Report on Finfish Ageing, 1999 by the Center for Quantitative Fisheries Ecology at Old Dominion University. CSV file

Examples

data(Croaker2)
str(Croaker2)
head(Croaker2)
op <- par(mfrow=c(1,2),pch=19)
plot(tl~age,data=Croaker2,subset=sex=="F",main="Female")
plot(tl~age,data=Croaker2,subset=sex=="M",main="Male")
par(op)

Description

Summarized (“RMark” format) capture histories of Cutthroat Trout (Oncorhynchus clarki) in Auke Lake, Alaska, from samples taken in 1998-2006.

Format

A data frame with 47 observations on the following 2 variables.

ch

Unique capture history (as a character string)

freq

Frequency of fish with that capture history

Topic(s)

• Population Size

• Abundance

• Mark-Recapture

• Capture-Recapture

• Jolly-Seber

• Capture History

Source

Entered from Appendix A.3 of Harding, R.D., C.L. Hoover, and R.P. Marshall. 2010. Abundance of Cutthroat Trout in Auke Lake, Southeast Alaska, in 2005 and 2006. Alaska Department of Fish and Game Fisheries Data Series No. 10-82. Accessed from http://www.sf.adfg.state.ak.us/FedAidPDFs/FDS10-82.pdf. CSV file

See Also

See CutthroatAL for the same data in “individual” fish format (i.e., the data in this file were converted using capHistConvert from FSA). See mrOpen from FSA for an example analysis.

Examples

data(CutthroatALf)
str(CutthroatALf)
head(CutthroatALf)

Description

Catch and effort data for Fantail Darter (Etheostoma flabellare) from seven removal events conducted by Mahon (1980).

Format

A data frame with 7 observations on the following 2 variables.

catch

Catch of Fantail Darter.

effort

Constant electrofishing effort.

Details

Catch (number of fish) was recorded. Effort was a constant amount of electrofishing for each sampling event and is, thus, entered as a constant value of 1.

These data are used in many publications because the stream section was rotenoned following the removal surveys to determine a known population size of 1151 individuals.

Topic(s)

• Population size

• Abundance

• Depletion methods

• Leslie method

• DeLury method

• Catchability

Source

From Mahon, R. 1980. Accuracy of catch-effort methods for estimating fish density and biomass in streams. Environmental Biology of Fishes. 4:343-363. CSV file

Examples

data(DarterMahon)
str(DarterMahon)
head(DarterMahon)

Description

Assigned ages (from otoliths), total length, and collection location of Channel Darter (Percina copelandi).

Format

A data frame of 54 observations on the following 3 variables:

age

Otolith age-at-capture (years).

tl

Total length (nearest 0.1 mm) at capture.

river

Location of capture (Salmon or Trent Rivers).

Topic(s)

• Growth

• von Bertalanffy

Note

The original author used a linear model to describe the relationship between length and age.

Source

From Figure 2 of Reid, S.M. Age estimates and length distributions of Ontario channel darter (Percina copelandi) populations. Journal of Freshwater Ecology 19:441-444. CSV file

Examples

data(DarterOnt)
str(DarterOnt)
head(DarterOnt)
op <- par(mfrow=c(1,2),pch=19)
plot(tl~age,data=DarterOnt,subset=river=="Salmon",main="Salmon R.")
plot(tl~age,data=DarterOnt,subset=river=="Trent",main="Trent R.")
par(op)

Description

Catches of Coho Salmon (Oncorhynchus kisutch) and Cutthroat Trout (Oncorhynchus clarki) in consecutive removal events at various locations in Little Stawamus Creek (British Columbia, Canada) in 1997.

Format

A data frame of 26 observations on the following 10 variables:

reach

Reach number of sampling location.

habitat

Habitat type of sampling location – pool, riffle, or run.

strata

Stratum number of sampling location.

area

Area (m^2) of sampling location.

coho1

Coho Salmon removed on the first pass.

coho2

Coho Salmon removed on the second pass.

coho3

Coho Salmon removed on the third pass.

cutt1

Cutthroat Trout removed on the first pass.

cutt2

Cutthroat Trout removed on the second pass.

cutt3

Cutthroat Trout removed on the third pass.

Topic(s)

• Population size

• Abundance

• Removal

Source

From Appendix 2a and 2b in Decker, A.S., J.M. Bratty, S.C. Riley, and J. Korman. 1999. Estimating standing stock of juvenile coho salmon (Oncorhynchus kisutch) and cutthroat trout (Oncorhynchus clarki) in a small stream: a comparison of sampling designs. Canadian Technical Report of Fisheries and Aquatic Sciences 2282. 24 pp. CSV file

Examples

data(Deckeretal1999)
str(Deckeretal1999)
head(Deckeretal1999)

## extract data for one sampling location (e.g., 3rd row)
Deckeretal1999[3,]

Description

Assigned ages, measured fork lengths, and observed sexes for European Perch (Perca fluviatilis) from Lake Tjuekemeer (The Netherlands).

Format

A data frame of 69 observations on the following 3 variables:

fl

Fork lengths (cm).

age

Assigned ages.

sex

Sex (female, male).

Topic(s)

• Growth

• fon Bertalanffy

Source

From (approximately) Figure 2 in Mooij, W.M., J.M. Van Rooij, and S. Wijnhoven. 1999. Analysis and comparison of fish growth from small samples of length-at-age data: Detection of sexual dimorphism in Eurasian perch as an example. Transactions of the American Fisheries Society, 128:483-490. CSV file

Examples

data(EuroPerchTJ)
str(EuroPerchTJ)
head(EuroPerchTJ)
op <- par(mfrow=c(1,2),pch=19)
plot(fl~age,data=EuroPerchTJ,subset=sex=="female",main="Female")
plot(fl~age,data=EuroPerchTJ,subset=sex=="male",main="Male")
par(op)

Description

Numbers of Flathead Catfish (Pylodictis olivaris) captured by electrofishing in three rivers – Coosa River, AL; Ocmulgee River, GA; and Satilla River, GA.

Format

A data frame of 39 observations on the following 3 variables:

river

Location of collection (Coosa, Ocmulgee, and Satilla)

age

Age (years) assigned from otolith

abundance

Number of captured fish with boat electrofishing

Topic(s)

• Mortality

• Catch curve

Source

From (approximately) Figure 3 in Sakaris, P.C., E.R. Irwin, J.C. Jolley, and D. Harrison. 2006.Comparison of Native and Introduced Flathead Catfish Populations in Alabama and Georgia: Growth, Mortality, and Management. North American Journal of Fisheries Management 26:867-874. CSV file

Examples

data(FHCatfish)
str(FHCatfish)
head(FHCatfish)
op <- par(mfrow=c(2,2),pch=19)
plot(log(abundance)~age,data=FHCatfish,subset=river=="Coosa",main="Coosa")
plot(log(abundance)~age,data=FHCatfish,subset=river=="Ocmulgee",main="Ocmulgee")
plot(log(abundance)~age,data=FHCatfish,subset=river=="Satilla",main="Satilla")
par(op)

Description

Catch-at-age of Flathead Catfish (Pylodictis olivaris) from three populations of Atlantic rivers – Lumber River, Northeast Cape Fear River (NCF), and Neuse River.

Format

A data frame of 44 observations on the following 3 variables:

river

Collection river (Lumber, NCF, and Neuse).

age

Age (yrs) assessed by otolith.

number

Number of captured fish.

Topic(s)

• Mortality

• Catch curve

Source

From (approximately) Figure 2 in Kwak, T.J., W.E. Pine III, and D.S. Waters. 2006. Age, growth, and mortality of introduced flathead catfish in Atlantic rivers and a review of other populations. North American Journal of Fisheries Management 26:73-87. CSV file

Examples

data(FHCatfishATL)
str(FHCatfishATL)
head(FHCatfishATL)
op <- par(mfrow=c(2,2),pch=19)
plot(log(number)~age,data=FHCatfishATL,subset=river=="Lumber",main="Lumber")
plot(log(number)~age,data=FHCatfishATL,subset=river=="NCF",main="NCF")
plot(log(number)~age,data=FHCatfishATL,subset=river=="Neuse",main="Neuse")
par(op)

Description

This package contains data to support the FSA package.

Usage

FSAdataTopics

Format

An object of class character of length 16.

Details

This package contains additional data files that can be used for common fisheries stock assessment methods described in the FSA package and on the fishR website.

The help files for these datasets are embedded with topics that can be searched to find data files that can be analyzed with those topics. For example, use the following commands to find data files for the corresponding topics.

Additional fisheries-related data sets are in the FSA and fishmethods packages.

Description

Assigned ages (from scales) and measured total lengths for each of 1577 Freshwater Drum (Aplodinotus grunniens) from Lake Erie.

Format

A data frame with 1577 observations on the following 2 variables.

age

Assigned ages (from scales).

tl

Measured total lengths (mm).

Topic(s)

• Growth

• von Bertalanffy

Source

Simulated from Table 3 of Bur, M.T. 1984. Growth, reproduction, mortality, distribution, and biomass of freshwater drum in Lake Erie. Journal of Great Lakes Research. 10:48-58. CSV file

See Also

FWDrumLE2.

Examples

data(FWDrumLE1)
str(FWDrumLE1)
head(FWDrumLE1)
plot(tl~age,data=FWDrumLE1)

Description

A total of 253 fish dispersed proportionately over 10-mm total length intervals from the FWDrumLE1 data frame was obtained for age assignment. The remaining fish in the file were only measured for length (i.e., the ages were deleted). This data file can be used to demonstrate the use of age-length keys.

Format

A data frame with 1577 observations on the following 2 variables.

age

Assigned ages (from scales).

tl

Measured total lengths (mm).

Topic(s)

• Age-Length Key

Source

CSV file

See Also

FWDrumLE1.

Examples

data(FWDrumLE2)
str(FWDrumLE2)
head(FWDrumLE2)
## Extract the aged sample
FWD.aged <- subset(FWDrumLE2,!is.na(age))
str(FWD.aged)
## Extract the length sample
FWD.length <- subset(FWDrumLE2,is.na(age))
str(FWD.length)

Description

Species accumulation data for fish of the Western Ghats of India derived from nine random samples of publications.

Format

A data frame with 350 observations on the following 2 variables.

unit

a manuscript that was reviewed.

cumspec

cumulative number of species described in the reviewed manuscripts.

Topic(s)

• Other

Source

From (approximately) Figure 1 in Dahanukar, N., R. Raut, and A. Bhat. 2004. Distribution, endemism and threat status of freshwater fishes in the Western Ghats of India. Journal of Biogeography 31:123-126. CSV file

Examples

data(Ghats)
str(Ghats)
head(Ghats)
plot(cumspec~unit,data=Ghats)

Description

Catches in removal events of Coho Salmon (Oncorhynchus kisutch) and Dolly Varden Char (Salvelinus malma) at various locations near the Greens Creek (AK) Mine site.

Format

A data frame of 66 observations on the following 8 variables:

location

Sampling location.

year

Sampling year.

species

Species (Coho.Salmon or Dolly.Varden).

set1

Catch on the first removal pass.

set2

Catch on the second removal pass.

set3

Catch on the third removal pass.

min.FL

Minimum observed fork length.

max.FL

Maximum observed fork length.

Details

Reaches were isolated by natural features, such as shallow riffles. The sample reaches were saturated with 6.35 mm (0.25 in) minnow traps baited with whirl packs containing disinfected salmon eggs.The traps were deployed for 1.5 h and then retrieved where each fish was transferred into a plastic bucket, and the trap was re-baited ans re-set for another 1.5 h soak. In between trapping events, fish were processed – measured and recorded FL to the nearest 1 mm, weight to the nearest 0.1 g, and species identified. Captured fish were retained during the sample period and returned alive after all three passes were complete.

Topic(s)

• Population size

• Abundance

• Removal

Source

From Appendix C1 of Kanouse, K.M. and B.P. Brewster. 2012. Aquatic Biomonitoring at Greens Creek Mine, 2012. Alaska Department of Fish and Game Technical Report No. 12-11. CSV file

Examples

data(GreensCreekMine)
str(GreensCreekMine)
head(GreensCreekMine)

## extract data for one location, year, and species (e.g., 3rd row)
GreensCreekMine[3,]

Description

Stock and recruitment data for Hake (Merluccius merluccius), 1982-1996.

Format

A data frame with 15 observations on the following 3 variables.

year

a numeric vector of years 1982-1996

recruits

a numeric vector of the number of recruits in millions

spawn.biomass

a numeric vector of spawning biomass in thousand tonnes

Topic(s)

• Stock-Recruit

• Recruitment

Source

Cadima, E. 2003. Fish Stock Assessment Manual, FAO Fisheries Department. 131 pp. CSV file

Examples

data(Hake)
str(Hake)
head(Hake)
op <- par(mfrow=c(1,2),pch=19)
plot(recruits~year,data=Hake,type="l")
plot(recruits~spawn.biomass,data=Hake)
par(op)

Description

Pacific Halibut (Hippoglossus stenolepis) stock, recruitment, landings, and fishing mortality by year, 1929-1991.

Format

A data frame of 63 observations on the following 5 variables:

year

Year of data

ssb

Spawning stock biomass (tonnes)

rec

Recruits (thousands)

land

Landings (in millions of pounds)

fmort

Fishing related mortality

Topic(s)

• Stock-Recruit

• Recruitment

Source

From Anonymous. 1989. International Pacific Halibut Commission. Annual Report 1989.; Myhre, Gordon, Peltonen, Stpierre, Skud, and Walden. International Pacific halibut Commission. Technical Report No. 14.; Pers. Comm. with Pat Sullivan. Obtained from Ransom Myers old online database. CSV file

Examples

data(HalibutPAC)
str(HalibutPAC)
head(HalibutPAC)
op <- par(mfrow=c(1,2),pch=19)
plot(rec~year,data=HalibutPAC,type="l")
plot(rec~ssb,data=HalibutPAC)
par(op)

Description

Total lengths of Walleye (Sander vitreus), Yellow Perch (Perca flavescens), Black Crappie (Pomoxis nigromaculatus), and Black Bullheads (Ameiurus melas) for four years in Lake Herman, SD.

Format

A data frame of 5931 observations on the following 3 variables:

tl

Total lengths (cm).

spec

Species codes (wae=walleye, yep=yellow perch, bkc=black crappie, and bbh=black bullhead).

yr

Capture years.

Details

Lake Herman was sampled on June 20-22, 2005 with four overnight gillnet sets and 10 overnight trapnet sets. The trapnets were constructed with 19-mm (0.75 in) bar-mesh netting, 0.9 m high x 1.5 m wide (3 ft high x 5 ft wide) frames and 18.3 m (60 ft) long leads. The gillnets were 45.7 m long x 1.8 m deep (150 ft long x 6 ft deep) with one 7.6 m (25 ft) panel each of 13, 19, 25, 32, 38 and 51-mm (0.5, 0.75, 1, 1.25, 1.5, and 2 in) bar-mesh monofilament netting.

Topic(s)

• Length Frequency

• Size Structure

• PSD

Source

From a South Dakota Fish and Game report. CSV file

Examples

data(Herman)
str(Herman)
head(Herman)
op <- par(mfrow=c(2,2),pch=19)
### Four (of 16 possible) examples
with(subset(Herman,spec=="bbh" & yr==2003),hist(tl,main="Black Bullhead, 2003"))
with(subset(Herman,spec=="bkc" & yr==2001),hist(tl,main="Black Crappie, 2001"))
with(subset(Herman,spec=="yep" & yr==2003),hist(tl,main="Yellow Perch, 2003"))
with(subset(Herman,spec=="wae" & yr==1999),hist(tl,main="Walleye, 1999"))
par(op)

Description

Stock and recruitment data for Blackwater Estuary Herring (Clupea harengus), 1962-1997 spawning years.

Format

A data frame with 36 observations on the following 3 variables.

spawning.year

a numeric vector of spawning years

ssb

a numeric vector giving biomass of spawning fish

recruits

a numeric vector containing the number of recruits

Topic(s)

• Stock-Recruit

• Recruitment

Source

From Fox, C.J. 2001. Recent trends in stock-recruitment of Blackwater herring (Clupea harengus L.) in relation to larval production. ICES Journal of Marine Science, 58:750-762. CSV file

Examples

data(HerringBWE)
str(HerringBWE)
head(HerringBWE)
op <- par(mfrow=c(1,2))
plot(recruits~spawning.year,data=HerringBWE,type="l")
plot(recruits~ssb,data=HerringBWE)
par(op)

Description

Icelandic summer spawning Herring (Clupeaformis harengus) stock, recruitment, landings, and fishing mortality by year, 1946-1996.

Format

A data frame of 51 observations on the following 6 variables:

year

Year of data

ssb

Spawning stock biomass (tonnes)

rec

Recruits – i.e., 1-year olds (thousands)

land

Landings (in millions of pounds)

fmort

Fishing related mortality

Topic(s)

• Stock-Recruit

• Recruitment

Source

From the Report of the Atlanto-Scandian Herring and Capelin Working Group. ICES Doc. C.M. 1995. Assess: 9.; Anon. 1986. Report of the herring assessment working group for the area south of 62 degrees N. ICES Doc. C.M. 1986. Assess: 19.; Anon. 1991. Report of the Atlanto-Scandian Herring and Capelin Working Group. ICES Doc. C.M. 1991. Assess: 17.; State of marine stocks and environmental conditions in Icelandic waters 1989 Fishing prospects 1990, August 1990. Hafranns\'oknastofnun Fj\"olrit NR. 19. Marine Research Institute, Iceland. Mon Jun 20, 1988.; Report of the Northern Pelagic and Blue Whiting Fisheries Working Group. ICES Doc. C.M. 1997. Assess:14. Obtained from Ransom Myers old online database. CSV file

Examples

data(HerringISS)
str(HerringISS)
head(HerringISS)
op <- par(mfrow=c(1,2))
plot(rec~year,data=HerringISS,type="l")
plot(rec~ssb,data=HerringISS)
par(op)

Description

Capture histories for Humpback Whitefish (Coregonus pidschian) greater than 360 mm in the Chatanika River, AK in 2012.

Format

A data frame with 1920 observations on the following 4 variables:

sectMrun

Section where the fish was captured on the marking run

Mrun

Indicator variable for the marking run (1=captured)

Rrun

Indicator variable for the recapture run (1=captured)

sectRrun

Section where the fish was captured on the recapture run

Topic(s)

• Population Size

• Abundance

• Mark-Recapture

• Capture-Recapture

• Petersen

• Capture History

Source

From Table 10 in Gryska, A.D. 2014. Stock assessment of humpback whitefish in the Chatanika River, 2012. Alaska Department of Fish and Game, Fishery Data Series No. 14-12, Anchorage. CSV file

Examples

data(HumpbackWFCR)
str(HumpbackWFCR)
head(HumpbackWFCR)

Description

Total lengths of all fish captured in Inch Lake, WI in May, 2007 and May, 2008.

Format

A data frame of 4894 observations on the following 5 variables:

netID

A unique identifier for the sampling event

netType

gear used (angling, seine, miniWDNR fyke net, miniNC fyke net, regular fyke net)

year

year of capture

species

species name

length

total length (inches to nearest 0.1)

Topic(s)

• Length Frequency

• PSD

• Size Structure

Source

Derek H. Ogle, personal collection. CSV file

See Also

See InchLake2 for a subsample that include weights.

Examples

data(InchLake1)
str(InchLake1)
head(InchLake1)

## Isolate just Bluegills
bg.il <- subset(InchLake1,species=="Bluegill")

## Isolate just largemouth bass from 2007
lmb7.il <- subset(InchLake1,species=="Largemouth Bass" & year==2007)

## Isolate all fish captured in seines
seine.il <- subset(InchLake1,netType=="seine")

Description

Total lengths and weights for a subsample of fish captured in Inch Lake, WI in May, 2007 and May, 2008.

Format

A data frame of 516 observations on the following 6 variables:

netID

A unique identifier for the sampling event

fishID

A unique identifier for the individual fish

species

Species name

length

Total length (inches to nearest 0.1)

weight

Wet weight (grams to nearest 0.1)

year

Year of capture

Topic(s)

• Weight-Length

• Condition

• Length Frequency

Source

Derek H. Ogle, personal collection. CSV file

See Also

See InchLake1 for the entire sample, but without weights.

Examples

data(InchLake2)
str(InchLake2)
head(InchLake2)

## Isolate just Bluegills
bg.il <- subset(InchLake2,species=="Bluegill")

## Isolate just largemouth bass from 2007
lmb7.il <- subset(InchLake2,species=="Largemouth Bass" & year==2007)

Description

Catch and effort data for Jobfish (Pristipomoides filamentosus) from the South Indian Ocean.

Format

A data frame with 13 observations on the following 2 variables.

catch

Catches (kg).

effort

Effort (man-hours).

Topic(s)

• Population size

• Abundance

• Depletion methods

• Leslie method

• DeLury method

• Catchability

Source

From Table 2 of Grandcourt, E.M. 2003. The effect of intensive line fishing on the virgin biomass of a tropical deepwater snapper, the crimson jobfish (Pristipomoides filamentosus). Fisheries Bulletin, 101:305-311. CSV file

Examples

data(JobfishSIO)
str(JobfishSIO)
head(JobfishSIO)

Description

Catches of Brown (Salmo trutta) and Rainbow Trout (Oncorhynchus mykiss) in consecutive removal events at various locations.

Format

A data frame of 40 observations on the following 10 variables:

species

Species of trout (brown or rainbow).

site

Site in the watershed. See source.

age0

Logical is TRUE if age-0 and FALSE if age is >0.

first

Catch on the first removal pass.

second

Catch on the second removal pass.

third

Catch on the third removal pass.

pop.cs

Population estimate by Carle-Strub method.

pop.sch

Population estimate by Schnute method.

q.cons

Logical is TRUE if catchability was constant.

rejected

Logical is TRUE if Schnute method rejected the population estimate because the standard error was too large.

Topic(s)

• Population size

• Abundance

• Removal

Source

From Table 1 in Jones, M.L. and J.D. Stockwell. 1995. A rapid assessment procedure for enumeration of salmonine populations in streams. North American Journal of Fisheries Management, 15:551-562. CSV file

Examples

data(JonesStockwell)
str(JonesStockwell)
head(JonesStockwell)

## extract data for one species, age, and site (e.g., 3rd row)
JonesStockwell[3,]

Description

Assigned ages and measured fork lengths for male Jonubi (Chalcalburnus mossulensis) from the Karasu River (Turkey).

Format

A data frame with 410 observations on the following 2 variables:

fl

Fork lengths (cm).

age

Assigned ages (years).

Topic(s)

• Growth

• von Bertalanffy

Source

Simulated from table 2 of Yildirim, A., H.U. Haluloulu, M. Turkmen, and O. Erdouan. 2003. Age and growth characteristics of Chalcalburnus mossulensis (Heckel, 1843) living in Karasu River (Erzurum-Turkey). Turkish Journal of Veterinary and Animal Science 27:1091-1096. CSV file

See Also

Jonubi2.

Examples

data(Jonubi1)
str(Jonubi1)
head(Jonubi1)
plot(fl~age,data=Jonubi1)

Description

Ages (subsample) and lengths (all fish) for Jonubi (Chalcalburnus mossulensis).

Format

A data frame with 410 observations on the following 2 variables.

fl

Fork length (cm) measurements

age

Assigned ages (years)

Details

A total of 50 fish dispersed proportionately over 1-cm fork length intervals from the Jonubi1 data frame was obtained for age assignment. The remaining fish in the file were only measured for length (i.e., the ages were deleted). This data file can be used to demonstrate the use of age-length keys.

Topic(s)

• Age-Length Key

Source

CSV file

See Also

Jonubi1.

Examples

data(Jonubi2)
str(Jonubi2)
head(Jonubi2)
plot(fl~age,data=Jonubi2)

Description

Stock and recruitment data for Red King Crab (Paralithodes camtschaticus) from the northern Gulf of Alaska around Kodiak Island by brood year, 1960-2004.

Format

A data frame of 44 observations on the following 3 variables:

year

Brood year (1960-2004)

recruits

abundance (thousands) of male recruits (>=125 mm and <145 mm)

adults

abundance (thousands) legal (>=145 mm carapace length) males

Topic(s)

• Stock-Recruit

• Recruitment

Source

From table 1 in Bechtol W.R. and G.H. Kruse. 2009. Analysis of a stock-recruit relationship for Red King Crab off Kodiak Island Alaska. Marine and Coastal Fisheries: Dynamics Management and Ecosystem Science 1:29-44. CSV file

Examples

data(KingCrabAK)
str(KingCrabAK)
head(KingCrabAK)
op <- par(mfrow=c(1,2),pch=19)
plot(recruits~year,data=KingCrabAK,type="l")
plot(recruits~adults,data=KingCrabAK)
par(op)

Description

Biological data (lengths, weight, age, and sex) of Lake Trout (Salvelinus namaycush) sampled from Lake NE12 of the Arctic Long Term Ecological Research location.

Format

A data frame of 86 observations on the following 6 variables:

id

A unique identification number.

tl

Total Length (nearest mm) at capture.

fl

Fork Length (nearest mm) at capture.

sl

Standard Length (nearest mm) at capture.

w

Weight (nearest g) at capture.

otorad

Total otolith radius (mm) at capture.

age

Age (completed growing seasons) at capture.

sex

Sex of the fish (F=female and M=male).

Details

Lake trout were removed from Lake NE12 in the summers of 1986, 1988, and 1989 using five-panel experimental gill nets (mesh size of 0.75, 1, 1.5, 2, and 2.5 inches). Lengths, weights, and sex were recorded from the fish while otoliths, and if possible, stomachs and gonads were removed for future analysis. A check was performed on several otoliths by an independent colleague and prevents introduction of bias due to familiarity with the samples.The original file was “cleaned” in the following ways:

1. Only Lake Trout were kept in the data file.

2. All unknown sex fish were removed.

3. Fish with missing data (length, weight,age, or sex) were removed.

4. Decimals were removed from the ages.

5. The unique IDs for fish from 1989 were changed to start at 500.

6. The weight of fish number 509 was changed from 100 to 1100.

Topic(s)

• Length Frequency

• Weight-Length

• Length Conversion

• Growth

• von Bertalanffy

• Size Structure

Source

Obtained from the Arctic LTER site. CSV file

Examples

data(LakeTroutALTER)
str(LakeTroutALTER)
head(LakeTroutALTER)
op <- par(mfrow=c(2,2),pch=19)
## Four (of many possible) examples
hist(LakeTroutALTER$tl,main="")
plot(w~tl,data=LakeTroutALTER)
plot(tl~fl,data=LakeTroutALTER)
plot(tl~age,data=LakeTroutALTER)
par(op)

Description

Length and egg deposition of Lake Superior Lake Trout (Salvelinus namaycush).

Format

A data frame of 101 observations on the following 2 variables:

tl

Total length (mm) of an individual fish.

eggs

Estimated number of eggs.

Topic(s)

• Other

Source

From (approximately) Figure 2 of Schram, S.T. 1993. Fecundity and egg deposition of a wild Lake Superior Lake Trout stock. Wisconsin Department of Natural Resources, Fisheries Management Report no. 149. CSV file

Examples

data(LakeTroutEggs)
str(LakeTroutEggs)
head(LakeTroutEggs)
plot(eggs~tl,data=LakeTroutEggs)

Description

Lake trout (Salvelinus namaycush) stock and recruitment by year at Gull Island Shoal, Lake Superior, 1964-1991.

Format

A data frame of 28 observations on the following 3 variables:

year

Year of data

stock

Mean CPE of adult female Lake Trout per 1000 m of gillnet captured in fall spawning surveys

recruits

Recruits (number of age-0 fish per ha) captured the following fall in bottom trawls

Topic(s)

• Stock-Recruit

• Recruitment

Source

From Schram, S.T., J.H. Selgeby, C.R. Bronte, and B.L. Swanson. 1995. Population recovery and natural recruitment of Lake Trout at Gull Island Shoal, Lake Superior, 1964-1992. Journal of Great Lakes Research. 21(supp.1):225-232. Obtained from Ransom Myers old online database. CSV file

Examples

data(LakeTroutGIS)
str(LakeTroutGIS)
head(LakeTroutGIS)
op <- par(mfrow=c(1,2))
plot(recruits~year,data=LakeTroutGIS,type="l")
plot(recruits~stock,data=LakeTroutGIS)
par(op)

Description

Stock and recruitment data for the 1971-1991 year-classes of Lake Trout (Salvelinus namaycush) in Michigan waters of Lake Superior.

Format

A data frame of 105 observations on the following 5 variables:

year

Year of data

recruits

Recuit index – geometric mean number of age-7 fish/km/net-night

wild

Wild fish spawning stock index – geometric mean number of wild age-8 and older fish/km/net-night

stocked

Stocked fish spawning stock index – geometric mean number of stocked age-8 and older fish/km/net-night

area

Lake Superior management unit

Topic(s)

• Stock-Recruit

• Recruitment

Source

From (approximately) figures in Richards, J.M., M.J. Hansen, C.R. Bronte, and S.P. Sitar. 2004. Recruitment dynamics of the 1971-1991 year-classes of Lake Trout in Michigan waters of Lake Superior. North American Journal of Fisheries Management 24:475-489. CSV file

Examples

data(LakeTroutMI)
LakeTroutMI$stock <- LakeTroutMI$wild+LakeTroutMI$stocked
str(LakeTroutMI)
head(LakeTroutMI)
op <- par(mfrow=c(3,2),pch=19)
plot(recruits~year,data=LakeTroutMI,subset=area=="MI3",type="l",ylim=c(0,max(recruits,na.rm=TRUE)))
lines(recruits~year,data=LakeTroutMI,subset=area=="MI4",col="blue")
lines(recruits~year,data=LakeTroutMI,subset=area=="MI5",col="green")
lines(recruits~year,data=LakeTroutMI,subset=area=="MI6",col="red")
lines(recruits~year,data=LakeTroutMI,subset=area=="MI7",col="yellow")
plot(recruits~stock,data=LakeTroutMI,subset=area=="MI3",main="MI3")
plot(recruits~stock,data=LakeTroutMI,subset=area=="MI4",col="blue",main="MI4")
plot(recruits~stock,data=LakeTroutMI,subset=area=="MI5",col="green",main="MI5")
plot(recruits~stock,data=LakeTroutMI,subset=area=="MI6",col="red",main="MI6")
plot(recruits~stock,data=LakeTroutMI,subset=area=="MI7",col="yellow",main="MI7")
par(op)

Description

Greater Lizardfish (Saurida tumbil) stock and recruitment by year, 1955-1964.

Format

A data frame of 10 observations on the following 6 variables:

year

Year of data

stock

Spawning stock (in ten thousands)

recruits

Recruits (in hundred thousands)

Topic(s)

• Stock-Recruit

• Recruitment

Source

Visually estimated from Figure 7.12 (p. 267) of Hilborn, R. and C.J. Walters. 1992. Quantitative Fisheries Stock Assessment: Choice, Dynamics, and Uncertainty. Chapman and Hall, New York. 570 p. CSV file

Examples

data(Lizardfish)
str(Lizardfish)
head(Lizardfish)
op <- par(mfrow=c(1,2))
plot(recruits~year,data=Lizardfish,type="l")
plot(recruits~stock,data=Lizardfish)
par(op)

Description

Assigned age (by scales) and total length of Longjaw Cisco (Leucichthys alpenae) captured at two locations in Lake Michigan.

Format

A data frame with 378 observations on the following 3 variables.

age

Assigned age (by scales).

tl

Measured total length (mm).

loc

Capture location (NE=northeast and S=south).

Topic(s)

• Growth

• von Bertalanffy

Source

Simulated from age-length data provided in tables 2 and 3 of Jobes, F.W. 1946. The age, growth, and distribution of the longjaw cisco, Leucichthys alpenae Koelz, in Lake Michigan. Transactions of the American Fisheries Society 76:215-247. CSV file

Examples

data(LJCisco)
str(LJCisco)
head(LJCisco)
op <- par(mfrow=c(1,2))
plot(tl~age,data=LJCisco,subset=loc=="NE",main="northeast")
plot(tl~age,data=LJCisco,subset=loc=="S",main="south")
par(op)

Description

Length measurements of Largemouth Bass (Micropterus salmoides) from Boomer Lake, Oklahoma, in 1974.

Format

A data frame of 447 observations on the following 1 variable:

tl

measured total length (cm)

Topic(s)

• Length Frequency

• Size Structure

• PSD

Source

From McNew, R.W. and R.C. Summerfelt. 1978. Evaluation of a maximum-likelihood estimator for analysis of length-frequency distributions. Transactions of the American Fisheries Society 107:730-736. Data was simulated (uniform distribution of values within length bin) from summarized length frequencies in http://fishbase.org/. CSV file

Examples

data(LMBassBL)
str(LMBassBL)
head(LMBassBL)
hist(LMBassBL$tl,main="")

Description

Lengthsfor Largemouth Bass (Micropterus salmoides) from Lake Carl Blackwell, Oklahoma, in 1973.

Format

A data frame of 289 observations on the following variable:

tl

Measured total length (cm).

Topic(s)

• Length Frequency

• Size Structure

• PSD

Source

From McNew, R.W. and R.C. Summerfelt. 1978. Evaluation of a maximum-likelihood estimator for analysis of length-frequency distributions. Transactions of the American Fisheries Society 107:730-736. Data was simulated (uniform distribution of values within length bin) from summarized length frequencies in http://fishbase.org/. CSV file

Examples

data(LMBassLCB)
str(LMBassLCB)
head(LMBassLCB)
hist(LMBassLCB$tl,main="")

Description

Catches of Slipper Lobster (Scyllarides squammosus) in three categories from the vicinity of Laysan Bank, Hawaiian Islands on 34 consecutive days in 1986.

Format

A data frame with 34 observations on the following 6 variables.

day

Day of the catch

legal

Number of legal lobsters caught.

sublegal

Number of sub-legal lobsters caught.

berried

Number of egg-bearing lobsters caught.

total

Total number of lobsters caught.

effort

Total daily effort expended.

Details

Catch (numbers) of lobster in three categories - legal (tail weight greater than 85g), sublegal (tail weight less than 85g), and berried (egg-bearing females). Sublegal and berried lobsters were returned to the water.

The vessel fished between 11 June and 14 July 1986 in the vicinity of Laysan Island and its associated bank. The daily operations of the vessel involved deploying and hauling 1,125 Fathom Plus lobster traps set in strings spaced at 30 m intervals.They were fished in 7 strings of about 160 traps each and baited with Pacific Mackerel, Scomber japonicus. Strings were soaked overnight and retrieved the following day; therefore, the standard unit of effort is the trap-haul.

Topic(s)

• Population size

• Abundance

• Depletion methods

• Leslie method

• DeLury method

• Catchability

Source

From Table 1 of Clarke, R.P., and S.S. Yoshimoto. 1990. Application of the Leslie model to commercial catch and effort of the slipper lobster, Scyllarides squammosus, fishery in the northwestern hawaiian islands. Marine Fisheries Review 52(2):1-7. CSV file

Examples

data(LobsterHI)
str(LobsterHI)
head(LobsterHI)

Description

Catch and effort data for Lobster from 33 days in 1944 from the Tignish area of Prince Edward Island.

Format

A data frame with 34 observations on the following 3 variables.

day

Day of the catch. Day 1 is 2-May-1944.

catch

Catch of Lobster in 1000s of pounds.

effort

Total daily effort expended in 1000s of traps.

Details

Catch (1000s of pounds) and effort (1000s of traps) of Lobster from 33 days in 1944 from the Tignish area of Prince Edward Island. The data start on 2-May. These data are from DeLury (1947) who used the data after 22-May (i.e., day 16) to illustrate his depletion method. The data were also used in Example 7.1 of Seber (2002). DeLury (1947) noted that the weight of Lobster did not change appreciably over time so that the poundage caught is a reasonable surrogate for numbers caught.

Topic(s)

• Population size

• Abundance

• Depletion methods

• Leslie method

• DeLury method

• Catchability

Source

From Table 1 of DeLury, D.B. 1947. On the estimation of biological populations. Biometrics 3:145-167. CSV file

Examples

data(LobsterPEI)
str(LobsterPEI)
head(LobsterPEI)

Description

Estimated catch-at-age for Gulf Menhaden (Brevoortia patronus), 1964-2004 from the reduction fishery in the U.S. Gulf of Mexico.

Format

A data frame with 41 observations on the following 7 variables.

year

Year of capture.

age0

Estimated catch (millions) of age-0 fish.

age1

Estimated catch (millions) of age-1 fish.

age2

Estimated catch (millions) of age-2 fish.

age3

Estimated catch (millions) of age-3 fish.

age4

Estimated catch (millions) of age-4 fish.

age5

Estimated catch (millions) of age-5 fish.

age6

Estimated catch (millions) of age-6 fish.

Topic(s)

• Mortality

• Catch curve

Source

From Table 2 in Vaughan, D.S., K.W. Shertzer, and J.W. Smith. 2007. Gulf menhaden (Brevoortia patronus) in the U.S. Gulf of Mexico: Fishery characteristics and biological reference points for management. Fisheries Research 83:263-275. CSV file

Examples

data(Menhaden1)
str(Menhaden1)
head(Menhaden1)
ages <- 0:6
# Extract one year, delete year column (the -1), and transpose to be a vector
ct <- t(Menhaden1[Menhaden1$year==1974,-1])
plot(ct~ages,pch=16,type="b",xlab="Age",ylab="Est. Catch (Millions)",main="year==1974")

Description

Ages assigned at two different times by Reader A to the otoliths of Jackass Morwong (Nemadactylus macropterus).

Format

A data frame with 217 paired observations on the following 2 variables.

first

Ages assigned on the first reading

second

Ages assigned on the second reading

Topic(s)

• Age Comparison

• Age Precision

• Age Bias

• Ageing Error

Source

From Table 5 of Restall, J.E., and K. Krusic-Golub. 2004. Development of jackass morwong age-length keys for 2000-2002. Final report to Australian Fisheries Management Authority. 13 pp. Primary Industries Research Victoria, Queenscliff. CSV file

Examples

data(Morwong1)
str(Morwong1)
head(Morwong1)
plot(second~first,data=Morwong1)
xtabs(~first+second,data=Morwong1)

Description

Ages assigned at two different times by Reader B to the otoliths of Jackass Morwong (Nemadactylus macropterus).

Format

A data frame with 136 observations on the following 2 variables.

first

Ages assigned on the first reading

second

Ages assigned on the second reading

Topic(s)

• Age Comparison

• Age Precision

• Age Bias

• Ageing Error

Source

From Table 6 of Restall, J.E., and K. Krusic-Golub. 2004. Development of jackass morwong age-length keys for 2000-2002. Final report to Australian Fisheries Management Authority. 13 pp. Primary Industries Research Victoria, Queenscliff. CSV file

Examples

data(Morwong2)
str(Morwong2)
head(Morwong2)
plot(second~first,data=Morwong2)
xtabs(~first+second,data=Morwong2)

Description

Ages assigned by two different readers to the otoliths of Jackass Morwong (Nemadactylus macropterus).

Format

A data frame with 58 paired observations on the following 2 variables.

readerA

Ages assigned by Reader A

readerB

Ages assigned by Reader B

Topic(s)

• Age Comparison

• Age Precision

• Age Bias

• Ageing Error

Source

From Table 7 of Restall, J.E., and K. Krusic-Golub. 2004. Development of jackass morwong age-length keys for 2000-2002. Final report to Australian Fisheries Management Authority. 13 pp. Primary Industries Research Victoria, Queenscliff. CSV file

Examples

data(Morwong3)
str(Morwong3)
head(Morwong3)
plot(readerB~readerA,data=Morwong3)
with(Morwong3,table(readerA,readerB))

Description

Assigned ages (from otoliths) and fork lengths of Jackass Morwong (Nemadactylus macropterus) from the Eastern portion of the Southern and Eastern Scalefish and Shark Fishery (SESSF) in 2000.

Format

A data frame with 392 observations on the following 2 variables:

fl

Measured fork lengths (cm).

age

Assigned ages (from otoliths).

Topic(s)

• Growth

• von Bertalanffy

Source

Ffrom appendix 1 of of Restall, J.E., and K. Krusic-Golub. 2004. Development of jackass morwong age-length keys for 2000-2002. Final report to Australian Fisheries Management Authority. 13 pp. Primary Industries Research Victoria, Queenscliff. CSV file

See Also

Morwong4a.

Examples

data(Morwong4)
str(Morwong4)
head(Morwong4)
plot(fl~age,data=Morwong4)

Description

A total of 104 fish dispersed proportionately over 1-cm fork length intervals from the Morwong4 data frame was obtained for age assignment. The remaining fish in the file were only measured for length (i.e., the ages were deleted). This data file can be used to demonstrate the use of age-length keys.

Format

A data frame with 392 observations on the following 2 variables.

fl

Fork lengths (cm)

age

Assigned ages

Topic(s)

• Age-Length Key

Source

CSV file

See Also

Morwong4.

Examples

data(Morwong4a)
str(Morwong4a)
head(Morwong4a)

## extract aged sample
m4a.aged <- subset(Morwong4a,!is.na(age))
str(m4a.aged)

## extract length sample
m4a.length <- subset(Morwong4a,is.na(age))
str(m4a.length)

Description

Ages and lengths of Eastern Mosquitofish (Gambusia holbrooki) from ten locations from southern France to southern Spain.

Format

A data frame with the following 8 variables:

site

Site (as a name) of capture.

sitenum

Site (as a number) of capture.

day

Day of capture.

month

Month of capture.

year

Year of capture.

sl

Standard length (to nearest 0.01 cm).

age

Age in integer years.

age2

Age in decimal years.

Topic(s)

• Growth

• Seasonal Growth

• von Bertalanffy

• Somers model

Source

From figure 3 of Carmona-Catot, G., A.F.G.N. Santos, P.A. Tedesco, and E. Garcia-Berthou. 2014. Quantifying seasonality along a latitudinal gradient: From stream temperature to growth of invasive mosquitofish. Ecosphere 5:134. CSV file

Examples

data(Mosquitofish)
str(Mosquitofish)
head(Mosquitofish)
plot(sl~age2,data=Mosquitofish)

Description

Ages assigned to whole and broken-burnt otoliths of Red Mullet (Mullus barbatus ponticus) sampled from the Black Sea (Samsun, Turkey).

Format

A data frame with 51 paired observations on the following 2 variables.

whole

Ages assigned from whole otoliths

bb

Ages assigned from broken/burnt otoliths

Topic(s)

• Age Comparison

• Age Precision

• Age Bias

• Ageing Error

Source

From Figure 3 of Polat, N., D. Bostanci, S. Yilmaz. 2005. Differences between whole otolith and broken-burnt otolith ages of red mullet (Mullus barbatus ponticus Essipov, 1927) sampled from the Black Sea (Samsun, Turkey). Turkish Journal of Veterinary and Animal Science 29:429-433. CSV file

Examples

data(MulletBS)
str(MulletBS)
head(MulletBS)
plot(whole~bb,data=MulletBS)
xtabs(~bb+whole,data=MulletBS)

Description

Ages of St. Lawrence River, ONT, Muskellunge (Esox masquinongy) assessed from scales and cleithra.

Format

A data frame of 43 observations on the following 2 variables:

ageC

Age assigned from examinaton of cleithrum

ageS

Age assigned from examination of scales

Topic(s)

• Age Comparison

• Age Precision

• Age Bias

• Ageing Error

Source

From Figure 3 in Casselman,J.M. 1983. Age and growth assessment of fish from their calcified structures - techniques and tools. In E.D. Prince and L.M. Pulos, editors, Proceedings of the international workshop on age determination of oceanic pelagic fishes: Tunas, billfishes, and sharks, volume NOAA Technical Report, NMFS 8:1-17. CSV file

Examples

data(MuskieSLR)
str(MuskieSLR)
head(MuskieSLR)
plot(ageS~ageC,data=MuskieSLR)
xtabs(~ageC+ageS,data=MuskieSLR)

Description

The number of Muskellunge (Esox masquinongy) from a variety of lakes in Wisconsin, 2006.

Format

A data frame with 40 observations on the following 7 variables.

county

County of the collection

lake

Lake of the collection

sex

Sex of the Muskellunge (male, female, unknown, total)

mark

Total number of fish marked on the marking run

catch

Total number of fish caught on the recapture run

recap

Total number of previously marked fish in the recapture run

Topic(s)

• Population Size

• Abundance

• Mark-Recapture

• Capture-Recapture

• Petersen

Source

Wisconsin Department of Natural Resources. CSV file

Examples

data(MuskieWI06MR)
str(MuskieWI06MR)
head(MuskieWI06MR)

Description

Lengths (standard, fork, and total) and weights for Pallid Sturgion (Scaphirhynchus albus) collected at four locations in the Missouri River drainage.

Format

A data frame with 30 observations on the following 7 variables:

date

Date of collection

sl

Standard length (mm)

fl

Fork length (mm)

tl

Total length (mm)

w

Weight (g)

status

Living status of fish at time of collection (Frozen, Live, Dead).

loc

Location of fish collection (NB=Nebraska, SD=South Dakota, ND=North Dakota, MT=Montana)

Topic(s)

• Weight-Length

• Length Conversion

Source

From Table 1 in Keenlyne, K.D. and S.J. Maxwell. 1993. Length conversions and length-weight relations for pallid sturgeon. North American Journal of Fisheries Management 13:395-397. CSV file

Examples

data(Pallid)
str(Pallid)
head(Pallid)
op <- par(mfrow=c(2,2),pch=19)
## four (of many possible) examples
plot(w~tl,data=Pallid,subset=loc=="NB",main="Nebraska")
plot(w~tl,data=Pallid,subset=loc=="SD",main="South Dakota")
plot(w~tl,data=Pallid,subset=loc=="ND",main="North Dakota")
plot(w~tl,data=Pallid,subset=loc=="MT",main="Montana")
par(op)

Description

Catch and effort for three Snapper species (Pristipomoides zonatus, Pristipomoides auricilla, and Etelis carbunculUs) in a depletion experiment around Pathfinder Reef in the Mariana Archipelago.

Format

A data frame with 13 observations on the following 5 variables.

date

Date (1984)

effort

Fishing effort (line-hours of a bottom hand-line)

Pzonatus

Catch of Pristipomoides zonatus

Pauricilla

Catch of Pristipomoides auricilla

Ecarbunculus

Catch of Etelis carbunculUs

Topic(s)

• Depletion methods

• Leslie method

• DeLury method

• Population size

• Abundance

• Catchability

Source

From Table 3 of Polovina, J.J. 1985. A variable catchability version of the Leslie model with application to an intensive fishing experiment on a multispecies stock. Fishery Bulletin 84:423-428. CSV file

Examples

data(Pathfinder)
str(Pathfinder)
head(Pathfinder)

Description

Capture histories for Northern Pike (Esox lucius) captured from Harding Lake, 1990.

Format

A data frame with 481 observations on the following 3 variables.

fish

a numeric vector of unique fish identification numbers

first

a numeric vector of indicator variables for the first sample (1=captured)

second

a numeric vector of indicator variables for the second sample (1=captured)

Topic(s)

• Population Size

• Abundance

• Mark-Recapture

• Capture-Recapture

• Petersen

• Capture History

Note

Only Northern Pike >449 mm were considered here.

Source

Capture histories simulated from summarized data in table 2 and text of Burkholder, A. 1991. Abundance and composition of northern pike, Harding Lake, 1990. Fishery Data Series 91-9, Alaska Department of Fish and Game. [Was (is?) from http://www.sf.adfg.state.ak.us/FedAidpdfs/Fds91-09.pdf.] CSV file

Examples

data(PikeHL)
str(PikeHL)
head(PikeHL)

Description

Catch and effort data for nine removal events of Northern Pike (Esox lucius) from Island Lake, NB.

Format

A data frame with 9 observations on the following 3 variables:

date

Capture date.

nets

Number of fyke nets fished on that date.

catch

Number of captured and removed pike.

Topic(s)

• Depletion methods

• Leslie method

• DeLury method

• Population size

• Abundance

• Catchability

Source

From Table 1 of Peterson, J., M. Taylor, and A. Hanson. 1980. Leslie population estimate for a large lake. Transactions of the American Fisheries Society, 109:329-331. CSV file

Examples

data(PikeIL)
str(PikeIL)
head(PikeIL)

Description

Capture histories (4 samples), in capture-by-date format, of a subset of Northern Pike from Buckthorn Marsh.

Format

A data frame with 69 observations on the following 2 variables.

sample

Name of the sample taken

id

Unique fish identification numbers

Details

Each line consists of the date and unique fish identification number over four samples of northern pike (Esox lucius) in Buckthorn Marsh. This file contains the capture histories for only those pike captured from April 1-4.

Topic(s)

• Population Size

• Abundance

• Mark-Recapture

• Capture-Recapture

• Schnabel

• Schumacher-Eschmeyer

• Capture History

Source

Simulated from summary data in Table C-1 of New York Power Authority. 2004. Use of Buckhorn Marsh and Grand Island tributaries by Northern Pike for spawning and as a nursery. Technical report, New York Power Authority, January 2004. Niagara Power Project (FERC No. 2216). CSV file

Examples

data(PikeNYPartial2)
str(PikeNYPartial2)
head(PikeNYPartial2)

Description

Stock and recruitment data for Northern Pike (Esox lucius) from Lake Windermere, 1944-1981.

Format

A data frame of 75 observations on the following two variables:

year

Year

stock

Female biomass (kg)

recruits

Number at age-2

basin

Basin of Windermere (North or South)

tdd14

Temperature degree-days over 14C

Topic(s)

• Stock-Recruit

• Recruitment

Note

Stock values were originally reported in 1000s of kgs and recruits were originally recorded in tens of numbers. Thus, plots look very discrete.

Source

From table 3 in Kipling, C. 1983. Changes in the population of pike (Esox lucius) in Windermere from 1944 to 1981. Journal of Animal Ecology 52:989-999. CSV file

Examples

data(PikeWindermere)
str(PikeWindermere)
head(PikeWindermere)
op <- par(mfrow=c(2,2),pch=19)
plot(recruits~year,data=PikeWindermere,subset=basin=="North",main="North")
plot(recruits~stock,data=PikeWindermere,subset=basin=="North",main="North")
plot(recruits~year,data=PikeWindermere,subset=basin=="South",main="South")
plot(recruits~stock,data=PikeWindermere,subset=basin=="South",main="South")
par(op)

Description

Harvest, escapement, and return of northern Southeast Alaska Pink Salmon (Oncorhynchus gorbuscha), 1960-1991, and average sea surface temperature between June and November off Sitka, Alaska, 1960-1990.

Format

A data frame of 34 rows on the following 5 variables:

year

Year of data

harvest

Harvest (thousands of fish)

escapement

Escapement (thousands of fish)

return

Returns (thousands of fish) as sum of harvest and escapement from two years later (lagging is for proper brood year correspondence)

SST

Average sea surface temperature (C) between June and November off Sitka, AK from one year latter (lagging is for matching when the salmon are actually in the ocean)

Topic(s)

• Stock-Recruit

• Recruitment

Source

From Table 3.1 in Quinn, T.J. and R.B. Deriso. 1999. Quantitative Fish Dynamics. Oxford University Press, New York, New York. CSV file

Examples

data(PSalmonAK)
str(PSalmonAK)
head(PSalmonAK)
op <- par(mfrow=c(1,2))
plot(return~year,data=PSalmonAK)
plot(return~escapement,data=PSalmonAK)
par(op)

Description

Biological information for Pygmy Whitefish (Prosopium coulterii) from Dina Lake #1 (British Columbia), 2000 and 2001.

Format

A data frame with 690 observations on the following 13 variables.

year

Year of capture (2000, 2001)

month

Month of capture

week

Week within a month of capture

net_no

Unique net identification number

fish_no

Unique fish identification number

fl

Fork length (cm)

tl

Total length (cm)

wt

Weight (g)

sex

Sex code (F=Female, M=Male, Imm=immature)

mat

Maturity code (Imm=immature, MG=maturing, MT=mature)

scale_age

Scale age (in years)

oto_age

Otolith age (in years)

USE

Should the individual be used for analyses.

Topic(s)

• Weight-Length

• Age Comparison

• Condition

• Length Frequency

Note

The tl and USE variables were added or teaching purposes only. The tl was created from fl using a known fl-tl relationship and a small random error.

Source

2000 data from Appendix 9 of J. D. McPhail and R. J. Zemlak. October 2001. Pygmy Whitefish studies on Dina Lake #1, 2000. Peace/Williston Fish and Wildlife Compensation Program, Report No. 245. 36pp plus appendices.

2001 data from Appendix 14 of Zemlak, R.J. and J.D. McPhail. 2003. Pygmy Whitefish studies on Dina Lake #1, 2001. Peace/Williston Fish and Wildlife Compensation Program Report No. 279. 35pp plus appendices. [Was (is?) from http://a100.gov.bc.ca/appsdata/acat/documents/r39503/pwfwcp_report_no_279_1383686631923_d6d1b25e3156cee45e442c5b3f756a6a7b4bb7ad7753efb1c51dc23ac997a9a6.pdf.] CSV file

Examples

data(PygmyWFBC)
str(PygmyWFBC)
head(PygmyWFBC)

Description

Rainbow Smelt (Osmerus mordax) recruitment time series for Lake Erie, 1977-1996.

Format

A data frame of 20 observations on the following 2 variables:

year

Year of data.

recruits

Number of recruits (per hour).

Topic(s)

• Recruitment time-series

Note

Zeros were changed to 0.1 in 1984, 1987, 1991, and 1994.

Source

From Ontario Ministry of Natural Resources, Fish and Wildlife Branch, 1997. Lake Erie fisheries report 1996. Lake Erie Committee Meeting, Great Lakes Fishery Commission, Ann Arbor, Michigan. pp 26. Obtained from Ransom Myers old online database. CSV file

Examples

data(RBSmeltErie)
str(RBSmeltErie)
head(RBSmeltErie)
plot(recruits~year,data=RBSmeltErie,type="l")

Description

Rainbow Smelt (Osmerus mordax) fork lengths from near Grand Haven, Lake Michigan, 1977.

Format

A data frame of 3293 observations on the following 1 variable:

fl

Fork length (mm)

Topic(s)

• Length Frequency

• Size Structure

Source

From Brandt, S.B., J.J. Magnuson, and L.B. Crowder. 1980. Thermal habitat partitioning by fishes in Lake Michigan. Canadian Journal of Fisheries and Aquatic Sciences. 37:1557-1564. Data was simulated (uniform distribution of values within length bin) from summarized length frequencies in http://fishbase.org/. CSV file

Examples

data(RBSmeltLM)
str(RBSmeltLM)
head(RBSmeltLM)
hist(RBSmeltLM$fl,main="")

Description

Length-at-marking and recapture and time-at-large for Rainbow Trout (Oncorhynchus mykiss) from the Kenai River, Alaska.

Format

A data frame with 102 observations on the following 3 variables:

Lr

Length (mm) at recapture.

Lm

Length (mm) at marking.

dt

Time-at-large (yrs).

Topic(s)

• Growth

• von Bertalanffy

• Fabens method

Source

From Table 4.10 in Quinn, T.J. and R.B. Deriso. 1999. Quantitative Fish Dynamics. Oxford University Press. 560 pages. This table is a 1/3rd subsample of the actual data presented in Baker, T.T., R. Lafferty, and T.J. Quinn II. 1991. A general growth model for mark-recapture data. Fisheries Research 11:257-281. CSV file

Examples

data(RBTroutKenai)
str(RBTroutKenai)
head(RBTroutKenai)
plot((Lr-Lm)~dt,data=RBTroutKenai)

Description

Capture histories for Rainbow Trout (Oncorhynchus mykiss) in Upper Niagara Springs pond.

Format

A data frame with 173 observations on the following 2 variables:

first

Indicator variable for the first sample (1=captured)

second

Indicator variable for the second sample (1=captured)

Topic(s)

• Population Size

• Abundance

• Mark-Recapture

• Capture-Recapture

• Petersen

• Capture History

Source

Simulated from Table 10 in of Warren, C.D., K.A. Frank, and F.E. Partridge. 2004. Federal Aid in Fish Restoration - 2000 job performance report. Idaho Department of Fish and Game. CSV file

Examples

data(RBTroutUNSP)
str(RBTroutUNSP)
head(RBTroutUNSP)

Description

Assigned ages (from otoliths) and fork lengths of Red Drum (Sciaenops ocellatus) from various areas of the Atlantic Coast, 1981-1988.

Format

A data frame with 393 observations on the following 2 variables.

age

Age (from otoliths to the nearest years but recorded at half-years)

fl

Fork length (mm)

Topic(s)

• Growth

• von Bertalanffy

Source

From (approximately) Figure 27 in Vaughan, D.S. and T.E. Helser. 1990. Status of the red drum stock of the Atlantic Coast: Stock assessment report for 1989. NOAA Technical Memorandum, NMFS-SEFC-263. CSV file

Examples

data(RedDrum)
str(RedDrum)
head(RedDrum)
plot(fl~age,data=RedDrum)

Description

Summarized multiple mark-recapture data for Tan Riffleshell.

Format

A data frame with 6 observations on the following 4 variables.

t

Sample number

caught

Total number of fish caught in the sample

recaps

Number of previously marked fish in the sample

retmarks

Number of marked fish returned to the population

Details

The number of mussels caught in multiple samples of Tan Riffleshell (Epioblasma florentina walkeri) from Indian Creek, Virginia. The caught fish were examined for previous marks, marked (if previously unmarked), and then returned to the population.

Topic(s)

• Population Size

• Abundance

• Mark-Recapture

• Capture-Recapture

• Schnabel

• Schumacher-Eschmeyer

Source

From Table 1-2 of Rogers, S.O. 1999. Population biology of the Tan Riffleshell (Epioblasma florentina walkeri) and the effects of substratum and light on juvenile mussel propagation. Virginia Tech M.S. Thesis. CSV file

Examples

data(Riffleshell)
str(Riffleshell)
head(Riffleshell)

Description

Catch-at-age for Cayuga Lake Rock Bass (Amploplites rupestris) from a single season.

Format

A data frame of 6 observations on the following 2 variables:

age

Assigned age.

catch

Number in catch.

Topic(s)

• Mortality

• Catch curve

Source

D.S. Robson and D.G. Chapman. 1961. Catch curves and mortality rates. Transactions of the American Fisheries Society 90:181-189. CSV file

Examples

data(RockBassCL)
str(RockBassCL)
RockBassCL
plot(log(catch)~age,data=RockBassCL)

Description

Assigned ages (from scales) and measured total lengths for each of 1288 Rock Bass (Ambloplites rupestris) from Lake Ontario.

Format

A data frame with 1288 observations on the following 2 variables:

age

Assigned ages (from scales).

tl

Measured total lengths (mm).

Topic(s)

• Growth

• von Bertalanffy

Source

Simulated from Table 1 of Wolfert, D.R. 1980. Age and growth of Rock Bass in Eastern Lake Ontario. New York Fish and Game Journal 27:88:90. CSV file

See Also

RockBassLO2.

Examples

data(RockBassLO1)
str(RockBassLO1)
head(RockBassLO1)
plot(tl~age,data=RockBassLO1)

Description

Ages (subsample) and lengths (all fish) for Rock Bass from Lake Ontario.

Format

A data frame with 1288 observations on the following 2 variables:

age

Assigned ages (from scales)

tl

Measured total lengths (mm)

Details

As many as 10 fish per 10-mm total length intervals from the RockBassLO1 data.frame was obtained for age assignment. The remaining fish in the file were only measure for length (i.e., the ages were deleted). This data file can be used to demonstrate the use of age-length keys.

Topic(s)

• Age-Length Key

Source

CSV file

See Also

RockBassLO1.

Examples

data(RockBassLO2)
str(RockBassLO2)
head(RockBassLO2)

## extract aged sample
rb.aged <- subset(RockBassLO2,!is.na(age))

## extract length sample
rb.length <- subset(RockBassLO2,is.na(age))

Description

Biological data for Ruffe (Gymnocephalus cernuus) captured in the St. Louis River, Lake Superior in 1992.

Format

A data frame of 738 observations on the following 11 variables:

fish.id

A unique fish identification number (across all years, most of which are not shown in this file

month

Month (numeric) of capture

day

Day of capture

year

Year of capture

indiv

A unique fish identification number within the year

location

Grid location of capture

length

Total length (mm)

weight

Weight (g)

sex

Sex factor (female, male, or unknown)

maturity

Maturity stage factor (developing, immature, mature, nearly.ripe, nearly.spent, recovering, ripe, running, spent, unknown, or yoy)

age

Age (yrs) from scales

Topic(s)

• Length Frequency

• Weight-Length

• Growth

• von Bertalanffy

• Maturity

Source

personal collection by the United States Geological Survey, Lake Superior Biological Station, Ashland, WI. CSV file

Examples

data(RuffeSLRH92)
str(RuffeSLRH92)
head(RuffeSLRH92)
op <- par(mfrow=c(2,2),pch=19)
hist(RuffeSLRH92$length,main="")
hist(RuffeSLRH92$age,main="")
plot(weight~length,data=RuffeSLRH92)
plot(length~age,data=RuffeSLRH92)
par(op)
xtabs(~age,data=RuffeSLRH92)
xtabs(~sex,data=RuffeSLRH92)
tmp <- c("yoy","immature","developing","mature","nearly.ripe","ripe",
         "running","nearly.spent","spent","recovering","unknown")
RuffeSLRH92$maturity <- ordered(RuffeSLRH92$maturity,levels=tmp)
xtabs(~maturity,data=RuffeSLRH92)
xtabs(~maturity+month+sex,data=RuffeSLRH92)

Description

Total length for Ruffe (Gymnocephalus cernuus) captured in July, 1989 (cycle 6) in the St. Louis River, Lake Superior.

Format

A data frame of 236 observations on the following 1 variable:

tl

Total length (mm).

Topic(s)

• Length Frequency

• Size Structure

Source

personal collection by the United States Geological Survey, Lake Superior Biological Station, Ashland, WI. CSV file

Examples

data(RuffeTL89)
str(RuffeTL89)
head(RuffeTL89)
hist(RuffeTL89$tl,main="")

Description

Ages and total lengths of Round Whitefish (Prosopium cylindraceum) collected from the Apostles Islands, Lake Superior.

Format

A data frame with 995 observations on the following 2 variables.

tl

Total length (in).

age

Age (from scales).

Topic(s)

• Growth

• von Bertalanffy

Source

From Table 3 (a random tenths digit was added to the TL) in Bailey, M.M. 1963. Age, growth, and maturity of Round Whitefish of the Apostle Islands and Isle Royale Regions, Lake Superior. Fishery Bulletin, 63:63-75. CSV file

Examples

data(RWhitefishAI)
str(RWhitefishAI)
head(RWhitefishAI)
plot(tl~age,data=RWhitefishAI)

Description

Ages and total lengths of Round Whitefish (Prosopium cylindraceum) collected from Isle Royale, Lake Superior.

Format

A data frame with 103 observations on the following 2 variables.

tl

Total length (in).

age

Age (from scales).

Topic(s)

• Growth

• von Bertalanffy

Source

From Table 4 (a random tenths digit was added to the TL) in Bailey, M.M. 1963. Age, growth, and maturity of round whitefish of the Apostle Islands and Isle Royale Regions, Lake Superior. Fishery Bulletin, 63:63-75. CSV file

Examples

data(RWhitefishIR)
str(RWhitefishIR)
head(RWhitefishIR)
plot(tl~age,data=RWhitefishIR)

Description

Catches in removal events of salmon parr from the Afon Dulas at Pentre, 19Jun79.

Format

A data frame with 5 observations on the following 2 variables:

catch

Removal event.

caught

Number of fish captured and removed.

Topic(s)

• Population size

• Abundance

• Removal

Source

From Table 2 in Cowx, I.G. 1983. Review of the methods for estimating fish population size from survey removal data. Fisheries Management 14:67-82. CSV file

See Also

TroutADP

Examples

data(SalmonADP)
str(SalmonADP)
SalmonADP

Description

Catches in removal events of Cutthroate Trout (Oncorhynchus clarki) and Steelhead (Oncorhynchus mykiss) of various sizes in two reaches of McGarvey Creek (CA).

Format

A data frame of 5 observations on the following 5 variables:

reach

Sampling location.

group

Size or species caught (fry=both age-0 Cutthroat Trout and Steelhead, Steelhead=age-1+ Steelhead, or Cutthroat=age-1+ Cutthroat Trout).

pass1

Catch on the first removal pass.

pass2

Catch on the second removal pass.

pass3

Catch on the third removal pass.

Details

Sampling was conducted using a Smith Root model 15-D POW electrofisher. Block nets were placed at upstream and downstream reach boundaries. Efforts were made to keep the effort consistent between passes. Fixed electrofisher settings were used to maintain capture probabilities during sampling. Index reaches were rested for at least 90 minutes between passes to allow recovery time for fish not captured.Fish were measured (fork length in mm) and weighed to the nearest 0.1 gm. Scales were collected from below the dorsal fin on both left and right sides of selected fish. After data were recorded for each pass, fish were placed in a loating live car until all sampling was completed. Fish were then released throughout the reach.

Topic(s)

• Population size

• Abundance

• Removal

Source

From Table 2 of Voight, H. 1999. Assessment of juvenile salmonid populations in two index reaches of McGarvey Creek, a tributary to the lower Klamath River. First Year of Investigations - 1998. [Was (is?) from http://www.krisweb.com/biblio/klamath_yuroktfp_voight_1999_7.pdf.] CSV file

Examples

data(SalmonidsMCCA)
str(SalmonidsMCCA)
head(SalmonidsMCCA)

## extract data for one reach and group (e.g., 3rd row)
SalmonidsMCCA[3,]

Description

Ages (in months) and total lengths of two year-classes of Sardine (Strangomera bentincki) from central Chilean waters.

Format

A data frame with 196 observations of the following 3 variables:

age.mon

Age in months.

tl.cm

Total length (cm).

cohort

Year-class.

Topic(s)

• Growth

• Seasonal Growth

• von Bertalanffy

• Somers model

Source

Directly from the authors of Cubillos, L.A., D.F. Arcosa, D.A. Bucareya, M.T. Canalesa. 2001. Seasonal growth of small pelagic fish off Talcahuano, Chile (37S, 73W): a consequence of their reproductive strategy to seasonal upwelling? Aquatic Living Resources, 14:115-124. Data were in Figure 9. CSV file

Examples

data(SardineChile)
str(SardineChile)
head(SardineChile)
SardineChile$age <- SardineChile$age.mon/12
plot(tl.cm~age,data=SardineChile)

Description

Ages (days) and total lengths of larval Lake Tanganyika Sardine (Limnothrissa miodon) from Lake Kariba.

Format

A data frame with 75 observations on the following 2 variables.

days

Age in days (determine from otoliths).

tl

Total length (mm within 0.1).

Topic(s)

• Growth

• von Bertalanffy

Source

From (approximately) Figure 3 of Mtsambiwa, M.Z. 1992. Fitting a von Bertalanffy growth model to length at age data for larval Limnothrissa miodon from Lake Kariba. Paper presented at the Symposium on biology, stock assessment, and exploitation of small pelagic fish species in the African Great Lakes region. [Was (is?) from http://www.fao.org/docrep/005/v2648e/V2648E06.htm.] CSV file

Examples

data(SardineLK)
str(SardineLK)
head(SardineLK)
plot(tl~days,data=SardineLK)

Description

Pacific Sardine (Sardinops sagax) stock and recruitment by year, 1935-1990.

Format

A data frame of 34 observations on the following 3 variables:

year

Year of data

ssb

Spawning stock biomass – millions of fish

recruits

Recruitment index – millions of fish

Topic(s)

• Stock-Recruit

• Recruitment

Source

From Jacobson, L.D. and A.D. MacCall. 1995. Stock-recruitment models for Pacific Sardine (Sardinops sagax). Canadian Journal of Fisheries and Aquatic Sciences 52:566-577. CSV file

Examples

data(SardinesPacific)
str(SardinesPacific)
head(SardinesPacific)
op <- par(mfrow=c(1,2),pch=19)
plot(recruits~year,data=SardinesPacific,type="l")
plot(recruits~ssb,data=SardinesPacific)
par(op)

Description

Biological data (length, weight, and age) for Slimy Sculpin (Cottus cognatus) sampled from Lake S-6 of the Arctic Long Term Ecological Research location.

Format

A data frame of 117 observations on the following 3 variables:

w

Weight (nearest 0.1 g) at capture

tl

Total length (nearest mm) at capture

age

Age (completed growing seasons from otoliths) at capture

Details

Slimy Sculpin were captured from Lake S-6 during the summers of 1988 and 1989. Sculpins were captured using canning jars with acetate funnels inserted in them (similar in design to some minnow traps). The sculpin traps were set by raft and placed on the bottom of the lake in a specific habitat (inshore, rocky, rock-mud interface, and mud bottom). (Roughly) every three days the traps were retrieved and the sculpins, if any, were removed.The ages of the fish were determined by counting the rings in their otoliths.

Topic(s)

• Length Frequency

• Weight-Length

• Growth

• von Bertalanffy

• Size Structure

Source

Obtained from the Arctic LTER site. CSV file

Examples