ChIPdata: ChIPdata object and constructors

In welch16/ChIPUtils: ChIPUtils - A package to perform exploratory analysis of ChIP data and most commonly used QC measures

Description

ChIPdata is used to contain either SE or PE reads, and the idea is to contain some of the most commonly used functions in a ChIP-seq/exo/nexus analysis.

Usage

ChIPdata(bamfile = NULL, reads = NULL, isPE = NULL)

Arguments

bamfile	a string indicating the location of the aligned reads bamfile
reads	either a GAlignments or a GAlignmentPairs object with the aligned reads of the ChIP experiment
isPE	a logical value indicating if the reads are Single-End (SE) or Paired-End (PE). In the case that both reads and isPE are both used, then the isPE value will be determined from reads and raise a warning

Value

a ChIPdata object

welch16/ChIPUtils documentation built on May 4, 2019, 4:18 a.m.