plot.gene: Gene plot

In rphast: Interface to 'PHAST' Software for Comparative Genomics

Description

make gene plot

Usage

## S3 method for class 'gene'
plot(x, y = 0, height = 1, arrow.density = 5, angle = 30,
  col = "black", lty = par("lty"), lwd = par("lwd"), add = FALSE,
  xlim = range.feat(x), ylim = c(y - height * 3/4, y + height * 3/4), ...)

Arguments

x	An object of type feat
y	the location of the plot on the y axis
height	the height of the boxes
arrow.density	The density of the arrows in arrows per inch
angle	angle (in degrees) of the arrow heads
col	color to use for plotting
lty	line type for arrows, borders, and shading
lwd	line width for arrows, borders and shading
add	if TRUE, add to existing plot
xlim	A numerical vector of length 2 giving the range for the x-axis.
ylim	A numerical vector of length 2 giving the range for the y-axis.
...	graphical parameters to be passed to plot.

Author(s)

Melissa J. Hubisz

Examples

exampleArchive <- system.file("extdata", "examples.zip", package="rphast")
featFile <- "sol1.gp"
unzip(exampleArchive, featFile)
f <- read.feat(featFile)
plot.gene(f)
plot.gene(f, xlim=c(0, 10000))  #zoom in

unlink(featFile)

Example output

rphast documentation built on May 1, 2019, 9:26 p.m.