expressedGenes: Function identifies expressed features using the methods...

In coregenomics/groHMM: GRO-seq Analysis Pipeline

Description

Function identifies expressed features using the methods introduced in Core, Waterfall, Lis; Science, Dec. 2008.

Usage

expressedGenes(features, reads, Lambda = NULL, BPPARAM = bpparam())

Arguments

features	A GRanges object representing a set of genomic coordinates. The meta-plot will be centered on the start position.
reads	A GRanges object representing a set of mapped reads.
Lambda	Measurement of assay noise. Default: 0.04 reads/ kb in a library of 10,751,533 mapped reads. (background computed in Core, Waterfall, Lis. (2008) Science.).
BPPARAM	Registered backend for BiocParallel. Default: BiocParallel::bpparam()

Value

Returns a data.frame representing the expression p.values for features of interest.

Author(s)

Charles G. Danko

coregenomics/groHMM documentation built on May 7, 2019, 7:57 a.m.