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aryeelab / hichipper

A preprocessing and QC pipeline for HiChIP data
MIT License
33 stars 12 forks source link

About html report #38

Open werhoog opened 6 years ago

werhoog commented 6 years ago

Hi,thank you for such program. But I am confused about html report. 1)Total_PETS are different from the file I offer (I only offer _allValidPairs and with 240661910 valid pairs(I just use "wc -l " to check).However ,the html file said this file is 336,357,341 valid pairs. And I check the "bwt2pairs.RSstat" ,but sum all type of pairs and which don't equal to 336,357,341

2)such html file also provide "Mapped_unique_quality", which is "2.8933" from Proportional Read Stats. But such step I already did in Hic-Pro,therefore it should be "0" of "Mapped_unique_quality"

why? Thank you!

caleblareau commented 6 years ago

@werhoog can you provide your .stat files?