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macs2 q-value #206

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User-yx opened this issue Jan 3, 2021 · 1 comment

User-yx commented Jan 3, 2021

When I use macs2 call peak, can I set the q-value instead of the p-value in this pipeline?

Contributor

leepc12 commented Jan 15, 2021 •

edited

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https://github.com/ENCODE-DCC/chip-seq-pipeline2/blob/master/chip.wdl#L990

Edit this line in chip.wdl.

                        else if peak_caller_=='macs2' then 'q.value'

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