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Why enrichment of TSS and TES region are similar when using scale-region #1274

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haojin9288 opened this issue Nov 5, 2023 · 1 comment

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@haojin9288
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Hello,

While using plotProfile to create enrichment for a Pol cut-tag dataset, I got similar enrichment peak around TSS and TES which actully will show higher enrichment in TSS than TES. So could someone help me figure out what wrong in that:
me: 微信图片_20231105175240

Here is my codes:
computeMatrix scale-regions -p 80 --skipZeros -R xx.bed -S xx.bw -b 2500 -a 2500 --regionBodyLength 2500 -o xx.gz
plotProfile -m xx.gz -out 1xx.pdf --legendLocation upper-right --dpi 750 --perGroup --averageType mean

Thank you in advance of the help!

@qqss8860
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Probably your bed file is not in the correct format. The strand info has to be in the 6th column, otherwise deepTools won't recognize.

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