APABox: APABox, APA RED Box plotting
In RJWANGbioinfo/APAlyzer: A toolkit for APA analysis using RNA-seq data

APABox

R Documentation

APABox, APA RED Box plotting

Description

APA RED Box plotting

Usage

	APABox (df, xlab = "APAreg", ylab = "RED",
						plot_title = NULL)

Arguments

`df`	a dataframe of APAdiff output
`xlab`	lable of x-axis, default is 'APAreg'
`ylab`	lable of y-axis, default is 'RED'
`plot_title`	Main title of plot

Value

The function APABox return a Box plot.

Author(s)

Ruijia Wang

Examples

    library("TBX20BamSubset")
    library("Rsamtools")
    flsall = getBamFileList()
    extpath = system.file("extdata",
    "mm9_TBX20.APAout.RData", package="APAlyzer")
    load(extpath)
    sampleTable1 = data.frame(samplename = c(names(flsall)),
        condition = c(rep("NT",3),rep("KD",3)))
    sampleTable2 = data.frame(samplename = c("SRR316184","SRR316187"),
        condition = c("NT","KD"))
    ## 3'UTR APA plot
    test_3UTRmuti=APAdiff(sampleTable1,DFUTRraw,
    conKET='NT',trtKEY='KD',PAS='3UTR',CUTreads=0)
	UTR_APA_PLOTBOX=APABox(test_3UTRmuti, plot_title='3UTR APA')

    ## IPA plot
    test_IPAmuti=APAdiff(sampleTable1,IPA_OUTraw,
    conKET='NT',trtKEY='KD',PAS='IPA',CUTreads=0)
	IPA_PLOTBOX=APABox(test_IPAmuti, plot_title='IPA')

RJWANGbioinfo/APAlyzer documentation built on Dec. 6, 2024, 3:36 p.m.