Hello,
I am wondering how I can measure ChIP-Seq intensity at any point of an aligned genome in windows of differing length (e.g. 1023-2000 bps and 1023 to 3004 bps). I am aware of R packages like csaw, which measure intensity at bins of a predefined length, but these windows will probably overlap with the specific windows I am targeting.
More specifically, I am performing a peak calling on ChIP-Seq data for 1 protein. Then, I will look at the intensities for other proteins in the same regions as the peaks for the first protein.
Thank you,
J.G.
I am wondering how I can measure ChIP-Seq intensity at any point of an aligned genome in windows of differing length (e.g. 1023-2000 bps and 1023 to 3004 bps). I am aware of R packages like csaw, which measure intensity at bins of a predefined length, but these windows will probably overlap with the specific windows I am targeting.
More specifically, I am performing a peak calling on ChIP-Seq data for 1 protein. Then, I will look at the intensities for other proteins in the same regions as the peaks for the first protein.
Thank you,
J.G.
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