adfg.ScaleAndRebinZCs: Scale and rebin size compositions

In wStockhausen/tcsamFisheryDataADFG: Functions to process ADFG crab fishery data

Scale and rebin size compositions

Description

Function to scale and rebin size compositions.

Usage

adfg.ScaleAndRebinZCs(
  mdfrScl,
  mdfrZCs,
  aggFacs = c("shell condition"),
  scaleCol = "abundance",
  sizeCol = "size",
  valCol = "count",
  cutpts = seq(from = 5, to = 185, by = 5),
  truncate.low = TRUE,
  truncate.high = FALSE,
  returnSampleSizes = FALSE,
  verbose = FALSE
)

Arguments

mdfrScl	: dataframe with scaling information
mdfrZCs	: "raw" size compositions (counts) to scale and rebin
aggFacs	: character vector of biological factors over which to aggregate (e.g., shell condition)
scaleCol	: name of column in mdfrScl with scale information
sizeCol	: name of column in mdfrZCs with sizes to rebin
valCol	: name of column in mdfrZCs with values to scale
cutpts	: vector of cutpoints
truncate.low	: flag to truncate below first cutpoint (i.e., cutpt[1]<-0)
truncate.high	: flag to truncate above last cutpoint (i.e., cutpt[last]<-Inf)
returnSampleSizes	: flag to return sample sizes as well as size compositions (default=FALSE)
verbose	: flag (T/F) to print diagnostic information

Details

Uses sqldf::sqldf(), reshape2::dcast(), wtsUtilities::Sum(), and wtsUtilities::applyCutPts(). Input column names should given "as is" and NOT be backquoted.

Value

If returnSampleSizes is FALSE, a dataframe with same columns as mdfrZCs, except that the valCol column is renamed to that in scaleCol.

If returnSampleSizes is TRUE, then the return value is a list with named elements

• tblSS -a dataframe with sample sizes

• tblZCs - the scaled, rebinned and expanded size compositions

wStockhausen/tcsamFisheryDataADFG documentation built on April 18, 2023, 12:56 p.m.