maplot.protein: Ratio intensity plot for individual proteins

Description Usage Arguments Author(s)

View source: R/IBSpectra-plots.R

Description

Plots ratio-versus-intensity for a selected protein against a reference channel.

Usage

1
2
3
4
5
maplot.protein(x, relative.to, protein, noise.model = NULL, channels = NULL, 
               xlim = NULL, ylim = NULL, identify = FALSE, add = FALSE, 
               pchs = NULL, log="xy", legend.pos = "topright", names = NULL, 
               legend.cex = 0.8, cols = pchs, ltys = 1, main = protein, 
               xlab = NULL, ylab = NULL, type="ma", show.lm = FALSE, ...)

Arguments

x

IBSpectra object

relative.to

a character vector specifying reporter tag names. Either of length 1 or same length as channels.

protein

Protein group identifier.

noise.model

NoiseModel object.

channels

Reporter tag names.

xlim

See par.

ylim

See par.

identify

boolean. If true, identify is called with peptide labels.

add
pchs

a vector of the same length as channels. See pch in plot.default.

log

a character string which contains x if the x axis is to be logarithmic, y if the y axis is to be logarithmic and xy or yx if both axes are to be logarithmic.

legend.pos

see pos in legend.

names

a character string of the same length as channels, legend text.

legend.cex

see cex in legend.

cols

a vector of the same length as channels. See col in plot.default.

ltys

a vector of the same length as channels. See lty in plot.default.

main

a main title for the plot

xlab

a label for the x axis, defaults to a description of x.

ylab

a label for the y axis, defaults to a description of y.

type

type of plot

...

passed to plot.

show.lm

show LM

Author(s)

Florian P. Breitwieser


isobar documentation built on Nov. 8, 2020, 7:48 p.m.