Brundle (version 1.0.9)

jg.getControlCounts: jg.getControlCounts

Description

This function counts the number of aligned reads in millions from a list of bam files. It returns these in as a list of numbers in the same order.

Usage

jg.getControlCounts(jg.control, jg.controlSampleSheet, jg.Condition)

Arguments

jg.control

is a peakset extracted by jg.dbaGetPeakset.

jg.controlSampleSheet

is the samplesheet supplied to DiffBind to generate jg.control.

jg.Condition

is the condition we the counts for as specficied in the samplesheet.

Examples

# NOT RUN {
data(jg.controlPeakset, package="Brundle")
fpath <- system.file("extdata", "samplesheet_SLX14438_hs_CTCF_DBA.csv",package="Brundle")
jg.controlSampleSheet<-fpath
jg.controlCountsTreated<-jg.getControlCounts(jg.controlPeakset, jg.controlSampleSheet,"Fulvestrant")
# }