multiBigwigSummary
I have .wig files for H3K9me3 ChIP and corresponding input samples. These are not library normalised and when uploaded on IGV, displays the absolute read counts. I want to quantify the signal across certain bed regions using multiBigwigSummary. Will converting it to bigwig files and then using deeptools multiBigwigSummary work? What normalisation is done by multiBigwigSummary to calculate the signal across the intervals specified in a bed file?
Is there a way to get a CPM normalised bigwig file that can be used for this quantification?
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Arup Ghosh
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sk_24 •
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sk_24 •
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The deeptools
multiBigwigSummarydoesn't perform any kind of normalisation, it just provides per-region average values.