cumulativePercentage {ChIPpeakAnno} | R Documentation |
Plot the difference between the cumulative percentage tag allocation in paired samples.
cumulativePercentage(bamfiles, gr, input = 1, binWidth = 1000, ...)
bamfiles |
Bam file names. |
gr |
An object of GRanges |
input |
Which file name is input. default 1. |
binWidth |
The width of each bin. |
... |
parameter for summarizeOverlaps. |
A list of data.frame with the cumulative percentages.
Jianhong Ou
Normalization, bias correction, and peak calling for ChIP-seq Aaron Diaz, Kiyoub Park, Daniel A. Lim, Jun S. Song Stat Appl Genet Mol Biol. Author manuscript; available in PMC 2012 May 3.Published in final edited form as: Stat Appl Genet Mol Biol. 2012 Mar 31; 11(3): 10.1515/1544-6115.1750 /j/sagmb.2012.11.issue-3/1544-6115.1750/1544-6115.1750.xml. Published online 2012 Mar 31. doi: 10.1515/1544-6115.1750 PMCID: PMC3342857
## Not run: path <- system.file("extdata", "reads", package="MMDiffBamSubset") files <- dir(path, "bam$", full.names = TRUE) library(BSgenome.Hsapiens.UCSC.hg19) gr <- as(seqinfo(Hsapiens)["chr1"], "GRanges") cumulativePercentage(files, gr) ## End(Not run)