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Old 11-06-2018, 12:21 PM   #1
markiv
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Location: USA

Join Date: Nov 2018
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Default Has anyone used Pathoscope pipeline for wgs?

Tool link here: https://sourceforge.net/p/pathoscope/wiki/Home/

I'm trying to process some WGS fastq files. I'm not clear on on the process as a whole. I have run PathoQC to derep and I now have dereplicated fastq files. I'm not sure how I figure out my TaxonID for PathoLib.

I'm interested in identifying bacteria and distributions of the bacteria. How do I go about that?
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