plotSNPData: plotSNPData

In bernatgel/FindFocals: Find focal gains & deletions in SNP array data

Description

Plots the raw SNP array data using karyoploteR

Usage

plotSNPData(snps, main="Raw Data", chromosomes="canonical", zoom=NULL, lrr.min=-4, lrr.max=2, total.height=1, bottom=0, margin=0.05, points.cex=0.3, labels.cex=1.5, main.cex=2, axis.cex=1.2, chr.cex=1.5)

Arguments

snps	The SNP array data
main	(defaults to "Raw Data")
chromosomes	(defaults to "canonical")
zoom	(defaults to NULL)
lrr.min	(defaults to -4)
lrr.max	(defaults to 2)
total.height	(defaults to 1)
bottom	(defaults to 0)
margin	(defaults to 0.05)
points.cex	(defaults to 0.3)
labels.cex	(defaults to 1.5)
main.cex	(defaults to 2)
axis.cex	(defaults to 1.2)
chr.cex	(defaults to 1.5)

Details

Creates a plot with the LRR and BAF values along the genome

Value

Invisibly returns the karyoplot object representing the plot. With it it is possible to add other elements to the plot using standrad karyoploteR functions

bernatgel/FindFocals documentation built on May 3, 2019, 9:04 p.m.