Hi, I am looking for tools or pipelines to normalise ChIP-Seq data that output normalised coverage files e.g. wiggle files for genome visualisation.
I would like to normalise samples against their control and also to normalise between multiple samples to compare differential binding profiles.
Most methods of normalisation appear to be built in to tools that output a set of peaks (peakfinders) or regions of differential binding (diffBind, edgeR, DEseq etc) but do not produce a normalised signal for further analysis.
I would like to normalise samples against their control and also to normalise between multiple samples to compare differential binding profiles.
Most methods of normalisation appear to be built in to tools that output a set of peaks (peakfinders) or regions of differential binding (diffBind, edgeR, DEseq etc) but do not produce a normalised signal for further analysis.
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