Man pages for FSA
Simple Fisheries Stock Assessment Methods

addZeroCatchAdds zeros for catches of species not collected in some...
ageBiasCompute and view possible differences between paired sets of...
agePrecisionCompute measures of precision among sets of ages.
alkAgeDistProportions-at-age from an age-length key
alkIndivAgeUse an age-length key to assign age to individuals in the...
alkMeanVarMean Values-at-age from an age-length key
alkPlotPlots to visualize age-length keys.
binCIConfidence intervals for binomial probability of success.
BluegillJLCapture histories (2 samples) of Bluegill from Jewett Lake,...
bootAssociated S3 methods for bootstrap results from car::Boot.
BrookTroutTHCatch-at-age for Tobin Harbor, Isle Royale Brook Trout.
capFirstCapitalizes the first letter of first or all words in a...
capHistConvertConvert between capture history data.frame formats.
capHistSumSummarize capture histories in individual fish format.
catchCurveMortality estimates from the descending limb of a catch...
chapmanRobsonComputes Chapman-Robson estimates of S and Z.
ChinookArgLengths and weights for Chinook Salmon from three locations...
CodNorwegianStock and recruitment data for Norwegian cod, 1937-1960.
col2rgbtConverts an R color to RGB (red/green/blue) including a...
CutthroatALCapture histories (9 samples) of Cutthroat Trout from Auke...
depletionComputes the Leslie or DeLury population estimate from catch...
dunnTestDunn's Kruskal-Wallis Multiple Comparisons.
EcoliPopulation growth of Escherichia coli.
expandCountsRepeat individual fish data (including lengths) from tallied...
expandLenFreqExpands a length frequency based on a subsample.
extraTestsLikelihood ratio and extra sum-of-squares tests.
fact2numConverts "numeric" factor levels to numeric values.
filterDDEPRECATED - Subsets/filters a data frame and drops the...
fishROpens web pages associated with the fishR website.
fitPlotDEPRECATED - Fitted model plot for an lm, glm, or nls object.
FSAFisheries stock assessment methods and data.
FSA-defunctDEFUNCT functions.
FSA-internalsInternal functions.
fsaNewsRead news and changes for the 'FSA' package.
geomeanCalculates the geometric mean or geometric standard...
growthModelsCreates a function for a specific parameterization of the von...
headtailShows rows from the head and tail of a data frame or matrix.
hist.formulaCreates separate histograms by levels.
histFromSumCreate a histogram from a frequency table.
hyperCIConfidence interval for population size (N) in hypergeometric...
is.oddDetermine if a number is odd or even.
knitUtilSpecific utilities for use in a knitr document.
ksTestKolmogorov-Smirnov Tests.
lagratioRatio of lagged observations.
lencatConstructs length class/category variable.
logbtcfConstructs the correction-factor used when back-transforming...
lwCompPredsConstructs plots of predicted weights at given lengths among...
metaMEstimate natural mortality from a variety of empirical...
MirexMirex concentration, weight, capture year, and species of...
mrClosedEstimate initial population size for single or multiple...
mrOpenJolly-Seber analysis from multiple mark-recapture events from...
nlsBootAssociated S3 methods for nlsBoot from nlstools.
nlsTracePlotAdds model fits from nls iterations to active plot.
peekPeek into (show a subset of) a data frame or matrix.
percComputes the percentage of values in a vector less than or...
PikeNYSummarized multiple mark-recapture data for all Northern Pike...
PikeNYPartial1Capture histories (4 samples), in capture history format, of...
plotABConstruct traditional (Campana-like) age-bias plots.
poiCIConfidence interval for Poisson counts.
psdAddCreates a vector of Gabelhouse lengths for each species in an...
psdCalcConvenience function for calculating PSD-X and PSD X-Y...
psdCICompute confidence intervals for PSD-X and PSD X-Y values.
PSDlitGabelhouse five-cell length categories for various species.
psdPlotLength-frequency histogram with Gabelhouse lengths...
psdValFinds Gabelhouse lengths (for PSD calculations) for a...
rcumsumComputes the prior to or reverse cumulative sum of a vector.
removalPopulation estimates for k-, 3-, or 2-pass removal data.
repeatedRows2KeepFind non-repeated consecutive rows in a data.frame.
residPlotDEPRECATED - Construct a residual plot from lm or nls...
rSquaredExtract the coefficient of determination from a linear model...
SchnuteThe four-parameter growth function from Schnute (1981).
SchnuteRichardsThe five-parameter growth function from Schnute and Richards...
seComputes standard error of the mean.
SMBassLSCatch-effort data for Little Silver Lake (Ont) Smallmouth...
SMBassWBGrowth increment data for West Bearskin Lake, MN, Smallmouth...
SpotVA1Age and length of spot.
srFunsCreates a function for a specific parameterization of a...
srStartsFinds reasonable starting values for parameters in specific...
SummarizeSummary statistics for a numeric variable.
sumTableCreates a one- or two-way table of summary statistics.
tictactoeConstruct a base tic-tac-toe plot for presenting...
validnFinds the number of valid (non-NA) values in a vector.
vbStartsFind reasonable starting values for a von Bertalanffy growth...
WhitefishLCAssigned ages from two readers on three structures for Lake...
WR79Ages and lengths for a hypothetical sample from Westerheim...
wrAddComputes a vector of relative weights specific to a species...
WSlitAll known standard weight equations.
wsValFinds standard weight equation coefficients for a particular...
FSA documentation built on July 17, 2021, 5:07 p.m.