motifTablePreProcess: Process count data and perform negative binomial test

In ManchesterBioinference/Motif2Site: Detect binding sites from motifs and ChIP-seq experiments, and compare binding sites across conditions

Description

Remove unmmaped regions, low and high binding regions and regions without fold change, and call negative binomial or nb test for the remaining regions.

Usage

motifTablePreProcess(countTableFile, outFile, currentDir)

Arguments

countTableFile	Tabl of count values around motifs for all ChIP-seq experiments
outFile	The name of the output file
currentDir	Directory for I/O operations

Value

sequencingStatitics A dataframe consists of the ratio of non-sequenced, low-sequenced, ang high-sequenced regions.

ManchesterBioinference/Motif2Site documentation built on Feb. 13, 2022, 2:03 a.m.