make.catch: Create dataset of class 'catch'

In omnr.gillnet: Gillnet size selectivity analysis

Description

Creates catch objects out of information on gillnet catches. These objects are required for use with the software in this package.

Usage

make.catch(mesh, lens, counts, binsize = 20,
  data.name = deparse(substitute(lens)), additional_mesh = numeric(),
  additional_lens = numeric())

## S3 method for class 'catch'
plot(x, y, mesh.pos = "topleft", y.incr = 200,
  cex.mesh = 1, cex.fork = 1, cex.main = 1.5, cex.xaxis = 1,
  cex.yaxis = 1, mar = c(1, 4, 0, 1), oma = c(4, 0, 4, 0),
  line.fork = 2, line.main = 2, ...)

Arguments

mesh	a vector of gillnet mesh sizes (one for each fish).
lens	a vector of fish lengths (one for each fish).
counts	optional. not important for now. I'll explain later.
binsize	positive number giving the size of the histogram bins that fish lengths are categorized into.
data.name	name of the data set.
additional_mesh	vector of mesh sizes to be considered by the model, which are not in the data .
additional_lens	vector of fish lengths to be considered by the model, which are not in the data.
x	an object of class catch.
y	not used...only present for consistency with default S3 method.
mesh.pos	a character string indicating where to print the mesh sizes. see legend for more details.
y.incr	increment of the y-axis scales
cex.mesh	relative point size of text indicating mesh sizes.
cex.fork	relative point size of text indicating fork lengths.
cex.main	relative point size of main title.
cex.xaxis	relative point size of x-axis.
cex.yaxis	relative point size of y-axis.
mar	margins of each individual plot.
oma	margins of overall plot.
line.fork	line for the text indicating fork lengths.
line.main	line for the main title.
...	additional arguments to pass to par.

Value

An object of class catch with components:

counts a number-of-length-bins by number-of-mesh-sizes matrix of fish counts.

lens a vector of the mid-point lengths corresponding to the rows of counts (note difference between input lens).

mesh a vector of the raw (i.e. uncorrected by perimeter.factor in fit.catch) mesh sizes corresponding to the columns of counts (note difference between input mesh).

Author(s)

Steve Walker

See Also

fit.catch, plot.catch

omnr.gillnet documentation built on May 2, 2019, 6:09 p.m.