ENCODE: ChIP-seq read counts of H3K36me3 of GM12878, H1-hESC, and...

In plbaldoni/mixNBHMM: Differential Peak Calling via Hidden Markov Model With Mixture of Negative Binomial Distributions

Description

Data from the ENCODE Consortium of H3K36me3 ChIP-seq experiments (2 technical replicates each) of GM12878, H1-hESC, and HepG2 cell lines from chromosome 2. PCR duplicates were removed with 'samtools markdup'. Low quality reads were removed with 'samtools view -q 10'. Read counts were tabulated using mixNBHMMDataSetFromBam.

Usage

data(ENCODE)

Format

RangedSummarizedExperiment

Source

https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM733679 https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM733725 https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM733685

References

doi: 10.1093/nar/gkx1081

Examples

data(ENCODE)
ENCODE

plbaldoni/mixNBHMM documentation built on Dec. 24, 2019, 1:31 p.m.