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NINJA-OPS v1.4.0
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@GabeAl GabeAl released this 14 Mar 06:31
· 52 commits to master since this release
v1.4.0
b328cfc
  • ninja_prep: now builds databases from a FASTA with string headers, line splits, comments, blank space, etc
  • ninja_prep: removed unnecessary variable region trimming and sorts
  • ninja_prep: now inserts spacers flanking marker genes; disable with --no-spacers
    • spacers allow for better chimera handling if ambigs penalized, or better overhang support if not (ITS; UNITE)
  • ninja_filter: new compilation directives controlling k-mer denoising stringency
  • ninja_filter: report what line a failure occurs on during read-in
  • ninja_filter: removed some extraneous tree functions
  • ninja_parse_filtered: now outputs QIIME OTU map file in LOG mode (-F full output in wrapper)
  • ninja_parse_filtered: no longer requires sorted taxonomy
  • ninja_parse_filtered: no longer requires all taxonomic labels to match references
  • ninja_parse_filtered: newline after legacy table, BIOM 1.0 format now outputs fixed-digit date
  • Rewrote database format
  • Cosmetic tweaks for consistency and readability
  • UNITE 30-1-16 DB now included
  • SILVA V4 database removed temporarily as new version is prepared (target: v1.4.1)
  • Re-compiled Greengenes DB
  • Reworked directory structure and updated various documentation
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