User: jojo_ezz

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jojo_ezz10
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Posts by jojo_ezz

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Answer: A: Fred's metabarcoding pipeline : Build the OTU table / keyerror in python script
... Thankfully Frédéric Mahé who developed this pipeline answered me. The error was a missing "?" in the OTU_contingency_table.py script. Just added a ? to the separator and the script worked perfectly: separator = "_[0-9]+|;size=[0-9]+;| " Need to be like this: separator = "_[0-9]+|;size=[0-9]+;?| ...
written 14 months ago by jojo_ezz10
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Fred's metabarcoding pipeline : Build the OTU table / keyerror in python script
... Hello, I am using Frédéric Mahé's metabarcoding pipeline at: https://github.com/frederic-mahe/swarm/wiki/Fred%27s-metabarcoding-pipeline . Everything worked fine until I reached the last step. Unfortunately I am stuck at "Build the OTU" table step. When I launch the bash script that reads intermed ...
metabarcoding python vsearch ubuntu bash written 14 months ago by jojo_ezz10 • updated 14 months ago by Frédéric Mahé3.0k

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