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torognes / vsearch

Versatile open-source tool for microbiome analysis
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Describe a standard metabarcoding pipeline for vsearch #219

Closed torognes closed 7 years ago

torognes commented 7 years ago

We should describe a standard metabarcoding pipeline for vsearch as a guide to users.

It could be based on Frédéric's metabarcoding pipeline for swarm:

https://github.com/frederic-mahe/swarm/wiki/Fred's-metabarcoding-pipeline

Perhaps it could use the new features for generating OTU tables in vsearch.

torognes commented 7 years ago

An example pipeline using VSEARCH is now in the Wiki:

https://github.com/torognes/vsearch/wiki/VSEARCH-pipeline