plotStatMap: plot the stat.tab file on a map

In armbrustlab/flowPhyto: Methods for Continuous Flow Cytometry

Description

plot the result of on a map

Usage

plotStatMap(df, pop, z.param, margin = 0.1, zlab = z.param, ma = 1, xlim= NULL, ylim=NULL, main=paste(pop, "-population"), track = NULL, cex=1, ...)

Arguments

df	dataframe of the summary data, ie stat.tab
pop	Name should match the one written in the stats.tab created by the Summarize function
z.param	parameter in the dataframe for which to plot the heatmap
zlab	the label for the values of the heatmap color gradient passed as 'col'
margin	margin of longitude and latitude around edges of current position.
ma	number of periods to average over z.param
xlim	limit of x axis
ylim	limit of y axis
main	Plot title
track	a dataframe of the cruise track (from the sds file) with longitude (long) and latitude (lat) named accordingly.
cex	scaling for plotting text and symbols.
...	additional arguments to be passed to the plot function

Value

returns a map of seaflow statistics

Examples

## load the data
stat.tab <- system.file("extdata","seaflow_cruise","stats.tab", 
					package="flowPhyto")
stats <- read.delim(stat.tab)

## plot the cell concentrations of the picoplankton population
plotStatMap(df=stats ,pop='synecho', z.param='conc')
mtext(line=1, side=4, "cell concentration 10^6 cells / L")

armbrustlab/flowPhyto documentation built on May 10, 2019, 1:40 p.m.