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jsh58 / Genrich

Detecting sites of genomic enrichment
MIT License
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Large difference in Peak number. #56

Closed Adnanhashim closed 4 years ago

Adnanhashim commented 4 years ago

Hi, First of all thanks for a wonderful tool. I have ATAC seq data with 2 replicates. I called peaks for multiple replicates collectively and also individually. Following are the number of peaks. There is a big difference in peak numbers. Could you please tell me the reason? I am also attaching IGV screenshot of peaks. Thanks in advance looking for a positive response :)

wc -l *narrowPeak 111512 control_fibs_1_2_consensus.narrowPeak 20211 control_fibs_1.narrowPeak 44189 control_fibs_2.narrowPeak

peak_difference_bigwiggle

jsh58 commented 4 years ago

This is addressed in the README and in #14, #19, #44, #51.

Adnanhashim commented 4 years ago

Hi,

Thanks. It's clear now :)