ChipDataSet-class {transcriptR}R Documentation

ChipDataSet

Description

The ChipDataSet is a S4 class to store input values, intermediate calculations and results of ChIP-seq peaks analysis.

Slots

peaks

GRanges. ChIP-seq peaks.

region

GRanges. Genomic region(s) to extract peaks from.

genomicAnnotation

Data.Frame. Genomic distribution of the peaks at distinct genomic features (TSSs, exons, introns, intergenic regions).

features

Data.Frame. Estimated characteristics (features) of the peaks.

tssOverlapPrediction

List. Prediction of the gene associated peaks. The following elements are reported:

strandPrediction

List. Prediction of the peak strandedness. The following elements are reported:

Author(s)

Armen R. Karapetyan

See Also

constructCDS predictTssOverlap predictStrand


[Package transcriptR version 1.20.0 Index]