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Ampliseq Version 2.11.0
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@d4straub d4straub released this 05 Aug 13:56
· 34 commits to master since this release
2.11.0
0473e15
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nf-core/ampliseq version 2.11.0 - 2024-08-06

Summary of changes

This update is mostly about reference taxonomy databases:

  • added reference databases sbdi-gtdb=R09-RS220-1 for DADA2
  • added reference databases unite-fungi=10.0 and unite-alleuk=10.0 for SINTAX
  • disabled UNITE reference databases for QIIME2
  • fixed broken urls for UNITE databases

Detailed changes

Added

  • #765 - Added version R09-RS220 of curated GTDB 16S taxonomy: sbdi-gtdb=R09-RS220-1 or sbdi-gtdb as parameter to --dada_ref_taxonomy
  • #766 - Added version 10 of Unite as parameter for --sintax_ref_taxonomy: unite-fungi=10.0 and unite-alleuk=10.0

Changed

  • #762 - Improved output documentation section "Optional ASV filtering" and parameter documentation
  • #766 - Modified warning filenames from QIIME2_ANCOM to avoid collisions
  • #766,#769 - Disabled Unite databases from the --qiime_ref_taxonomy because of divergent results compared to the other classifiers

Fixed

  • #761 - Some sample sheet checks were not applied due to changes in the metadata ["meta"] structure in version 2.9.0
  • #766 - Fixed broken urls for Unite databases (issue #764)
  • #769 - Reference taxonomy database values were not properly validated in versions 2.9.0 and 2.10.0
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