bic.plot.rseqc.line.chart: Plot RSeQC sequential metrics in a line graph

In bic-mskcc/bicrnaseq: MSKCC Bioinformatics Core RNASeq

Description

Create a line chart for merged RSeQC metrics where each line represents a sample with the x axis showing sequential numeric value (e.g., read read position or GC content value) and the y axis is a count

Create a line chart for merged RSeQC metrics where the x axis is a numerical value and the y axis is a count

Usage

bic.plot.rseqc.line.chart(dat, title, dat2 = NULL, title2 = NULL,
  main = NULL, col.pal = "Set3", file = NULL)

bic.plot.rseqc.line.chart(dat, title, dat2 = NULL, title2 = NULL,
  main = NULL, col.pal = "Set3", file = NULL)

Arguments

dat	data frame where column1 contains sequential numeric values and the remaining columns are metric values for each sample
title	plot title
dat2	second data frame with the same structure as dat1, to be plotted adjacent to the plot of dat (optional; used to plot data for read 1 and read 2 on one page)
title2	title of second plot (optional)
main	if plotting two datasets, this is the main title for the page
col.pal	color palette (Default: "Set3")
file	PDF file to which plot should be saved (optional)
dat	data frame where column1 contains read position for either read 1 or read 2, and the remaining columns are metric values for each sample; position column name must be "Position"
title	plot title
dat2	second data frame with the same structure as dat1, to be plotted adjacent to the plot of dat (optional; used to plot data for read 1 and read 2 on one page)
title2	title of second plot (optional)
main	if plotting two datasets, this is the main title for the page
col.pal	color palette (Default: "Set3")
file	PDF file to which plot should be saved (optional)

bic-mskcc/bicrnaseq documentation built on May 24, 2019, 3:04 a.m.