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dereneaton / ipyrad

Interactive assembly and analysis of RAD-seq data sets
http://ipyrad.readthedocs.io
GNU General Public License v3.0
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Step7 - How to filter PE R1 and R2 individually if they've been merged? #61

Closed isaacovercast closed 5 years ago

isaacovercast commented 8 years ago

D: I have no idea how this would work.

dereneaton commented 8 years ago

I think we'll have to treat it as an R1 read.

isaacovercast commented 8 years ago

One hack idea: what if we split merged reads in half and filtered using R1 and R2, it's hackish but it's more consistent. If there's merged and unmerged PE reads and there were R1 and R2 filters then merged reads would be subject to much more restrictive filtering.

Oooh, how about for merged reads you use R1+R2 filters. Again it's a little hackish, but maybe more of a forgivable sin.

isaacovercast commented 5 years ago

fixed.