User: Philipp Bayer

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philippbayer
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Posts by Philipp Bayer

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Comment: C: mosdepth output into cn.mops?
... Hi that worked perfectly - here's a crappy Python script that takes all mosdepth output and writes one table: from glob import glob import gzip from collections import OrderedDict individuals = [] bin_dict = OrderedDict() files = sorted(glob('*25000_mosdepth.regions.bed.gz')) # ASSUMPTION: MOSD ...
written 3 months ago by Philipp Bayer0
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Comment: C: mosdepth output into cn.mops?
... Thank you for your fast response - you're right, looking at mosdepth's regions.bed.gz it gives out the DOC: ABC80423 0 703 91.83 So I will use your formula to get an integer for that, and then it's done - thank you! ...
written 3 months ago by Philipp Bayer0
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mosdepth output into cn.mops?
... Hi I have some very large bam-files (>200TB in total) and cn.mops is taking a while, so I've been thinking of using mosdepth instead - is my approach like this valid/am I breaking any assumptions in cn.mops? 1) Run mosdepth with a 25000 bp window, identical to the ranges in the cn.mops manual ( ...
cn.mops written 3 months ago by Philipp Bayer0 • updated 3 months ago by Günter Klambauer540

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