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ChIP peak data set comparison

Hi all,

I am fairly new to coding and am trying to work through the ChIPSeeker package using my own data in R. I am not sure how to input multiple files (.bed) into the getTagMatrix command. I want to generate profiles of ChIP peaks among different experiments. I want to compare ChIP peaks of two different experiment.

Can someone give me any advice?

Thanks Swadha

chipseekar chip-seq
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updated by pariksheet.nanda • pariksheet.nanda • written by s.singh • s.singh

1 answer

Read in the .bed files using the import.bed() function of the rtracklayer bioconductor package. import.bed() returns a GRanges object which getTagMatrix() accepts.

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written by pariksheet.nanda • pariksheet.nanda

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