Can I use deeptools to calculate nucleosome positions?
I have some ATAC-data that I have separated into fragments less than 100bp, and fragment >150bp. Can I normalise them to each other (i.e. the 150 bam normalised against the <100 bam) to get my potential nucleosome reads? Can I do this in deep tools. Nucleoatac has proven to be quiet conservative, and I only have 10million fragments for my >150bam file.
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