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ufits v0.4.3
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@nextgenusfs nextgenusfs released this 07 Sep 15:41
· 387 commits to master since this release
0.4.3
10a014b
  • update to Databases: UNITE v7.1, LSU (based on RDP data), 16S (based on RDP gold), COI (based on BOLD database of arthropods and chordates).
  • databases are installed now with ufits install -i ITS LSU 16S COI
  • Robert Edgar now says that chimera reference filtering should use largest database (as opposed to UCHIME paper that says a small curated database is better), thus chimera reference filtering is now configured to do exactly that, options during clustering are: ufits cluster --uchime_ref [ITS,16S,LSU,COI, custom_path]
  • ufits cluster_ref has been updated with the above database information - note this script is still experimental and I would not recommended using it for any environmental data at this point - there may be some targeted usage where it is appropriate
  • re-write of ufits taxonomy to coincide with updates to databases, now you can pass one of the pre-installed databases to the -d, --db flag or you can specify manually a database using --fasta_db, --usearch_db, and/or --utax_db
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