Need help with jagged plotProfile results in deepTools (LACE-seq data)
Hi everyone,
I'm currently working on a LACE-seq project and trying to generate a metagene profile using deepTools plotProfile. Even though I'm using CPM-normalized BigWig files, my output curves look very jagged and noisy compared to the smooth plots I usually see in publications.
I suspect it’s related to the sparsity of LACE-seq data or my current computeMatrix settings.
I will post my specific script and current parameters in the comments below to avoid the spam filter. Has anyone dealt with this specifically for CLIP-type data? Any smoothing tips would be amazing!
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zhuzhuzhu •
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