plotGeneCov: plotGeneCov

In scottzijiezhang/m6Amonster: Analyze m6A seq data

Usage

plotGeneCov(readsOut, geneName, libraryType = "opposite", center = "mean",
  GTF, ZoomIn = NULL, adjustExprLevel = TRUE)

Arguments

readsOut	The data list from countReads and other analysis.
geneName	The gene symbol to be ploted.
libraryType	Specify whether the library is the same or opposite strand of the original RNA molecule. Default is "opposite".
center	Specify the method to calculate average coverage of each group. Could be mean or median.
GTF	The GRanges object containing gtf annotation. Can obtain by rtracklayer::import("file.gtf", format= "gtf").
ZoomIn	c(start,end) The coordinate to zoom in at the gene to be ploted.
adjustExprLevel	logical parameter. Specify whether normalize the two group so that they have similar expression level.

scottzijiezhang/m6Amonster documentation built on Jan. 8, 2021, 1:37 p.m.