gabp_peaks: Peak Calling results on GABP data

In WaveSeqR: A Wavelet-based Method for ChIP-Seq peak calling

Description

Data frame containing the list of peaks detected by WaveSeqR in a published GABP ChIP-Seq data set. The data corresponds to the genomic region chr22:15000000-30000000 of the hg18 version of the human genome. Mother function was 'morlet' and gap size was 0.

Usage

data(gabp_peaks)

Format

A data frame with 1590 observations on the following 8 variables.

chr

Chromosome name

start

Start position

end

End position

chip_reads

Number of ChIP reads

control_reads

Number of control reads

fold_change

Fold-change ChIP vs control

p.value

P-value

adj.p.value

Adjusted p-value

Source

http://mendel.stanford.edu/sidowlab/downloads/quest/

References

Valouev, A. et al (2008) Genome-wide analysis of transcription factor binding sites based on ChIP-Seq data.. Nat Methods. 2008 Sep;5(9):829-34.

Examples

data(gabp_peaks)
## maybe str(gabp_peaks) ; plot(gabp_peaks) ...

WaveSeqR documentation built on May 2, 2019, 5:19 p.m.