scape (version 1.0-8)

plotCL: Plot Catch at Length

Description

Plot scape model fit to catch-at-length data.

Usage

plotCL(model, what="c", fit=TRUE, series=NULL, sex=NULL, years=NULL,
       lengths=NULL, axes=TRUE, same.limits=TRUE, log=FALSE, base=10,
       eps.log=1e-5, main="", xlab="", ylab="", cex.main=1.2, cex.lab=1,
       cex.strip=0.8, cex.axis=0.8, las=!fit, tck=c(1,fit)/2,
       tick.number=5, lty.grid=3, col.grid="grey", pch=16,
       cex.points=0.5, col.points="black", lty.lines=1, lwd.lines=2,
       col.lines=c("red","blue"), plot=TRUE, ...)

Arguments

model

fitted scape model containing element CLc and/or CLs.

what

what should be plotted: "c"[ommercial] or "s"[urvey] catch at length.

fit

whether fitted values should be overlaid on observed data.

series

vector of strings indicating which gears or surveys should be plotted (first by default).

sex

string indicating which sex should be plotted (both by default).

years

vector of numbers indicating which years should be plotted (all by default).

lengths

vector of numbers indicating which lengths should be plotted (all by default).

axes

whether axis values should be plotted.

same.limits

whether panels should have same y-axis limits.

log

whether values should be log-transformed.

base

logarithm base.

eps.log

small number to add before log-transforming to avoid log 0.

main

main title.

xlab

x-axis label.

ylab

y-axis label.

cex.main

size of main title.

cex.lab

size of axis labels.

cex.strip

size of strip labels.

cex.axis

size of tick labels.

las

orientation of tick labels: 0=parallel, 1=horizontal, 2=perpendicular, 3=vertical.

tck

tick mark length.

tick.number

number of tick marks.

lty.grid

line type of gridlines.

col.grid

colour of gridlines.

pch

symbol for points.

cex.points

size of points.

col.points

colour of points.

lty.lines

line type of main lines, possibly a vector where element 2 refers to males.

lwd.lines

line width of main lines, possibly a vector where element 2 refers to males.

col.lines

colour of main lines, possibly a vector where element 2 refers to males.

plot

whether to draw plot.

...

passed to xyplot, panel.xyplot, panel.superpose, and panel.superpose.2.

Value

• When plot=TRUE, a trellis plot is drawn and a data frame is returned, containing the data used for plotting. When plot=FALSE, a trellis object is returned.

concept

Fisheries stock assessment

See Also

Lattice, xyplot, panel.xyplot, panel.superpose, balloonplot. scape-package gives an overview of the package.

Examples

plotCL(x.ling, fit=FALSE, strip=FALSE, series="1", sex="Female",
       xlab="Length (cm)", ylab="Year")

plotCL(x.oreo, xlab="Length (cm)", ylab="Proportion in catch")

plotCL(x.oreo, "s", layout=c(2,1), xlab="Length (cm)",
       ylab="Observed proportion in survey", cex.points=0.8,
       col.points=c("red","blue"), lty.lines=0)

plotCL(x.ling, fit=FALSE, series="2", xlab="Length (cm)",
       ylab="Observed proportion in trawl catch")