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CHANGELOG.rst

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Change log

All notable changes to this project will be documented in this file. The project loosely follows semantic versioning. The following subheaders are used in the change log:

  • Added for new features.
  • Changed for changes in existing functionality.
  • Deprecated for once-stable features removed in upcoming releases.
  • Removed for deprecated features removed in this release.
  • Fixed for any bug fixes.
  • Security to invite users to upgrade in case of vulnerabilities.

The topmost subheader is always [wip], and lists what is currently being worked on. Below the work in progress, a subheader for each notable release lists the main changes introduced by that release.

[wip]

Added

Fixed

[Second release] 2017-04-21 version 1.1.0

Added

  • Peptide sequence is now included in --write-discriminative-peptides output
  • --reassign-taxids now allows to modify taxid assignments for refseqs in the taxref DB.
  • --peptide-fasta to include peptide sequences in taxonomic composition output file.
  • --add-annotations to add annotations to annotation DB.
  • New helper script: get_peptide_sequences.py to print discriminative peptides and their taxonomic assignments.

Fixed

  • Removed Terrabacteria group with no rank from output listing.
  • No longer try to insert taxids into taxref DB when pre existing sample DB is used.

[First release] 2016-06-13 version 1.0.0

Added

  • Taxonomic composition estimation with xslx output.
  • Antibiotic resistance detection.