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Releases: jodyphelan/TBProfiler

TBProfiler v6.6.5

15 Jul 17:13
@jodyphelan jodyphelan
v6.6.5
5ce64b5
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TBProfiler v6.6.5 Latest
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Changes

  • Bug fix for --external_db use
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TBProfiler v6.6.4

30 Jun 06:11
@jodyphelan jodyphelan
v6.6.4
7ba9ab2
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TBProfiler v6.6.4

Changes

  • Add masking based on high coverage for consensus generation
  • Change db to use corrected alr coordinates
  • Use pathogen-profiler v5.0.1
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TBProfiler v6.6.3

06 Mar 14:55
@jodyphelan jodyphelan
v6.6.3
9757c14
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TBProfiler v6.6.3

Changes

  • bugfix for wrong version reported with --version
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TBProfiler v6.6.2

20 Feb 15:51
@jodyphelan jodyphelan
v6.6.2
bd94ce5
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TBProfiler v6.6.2

Changes

  • Fix typo leading to downstream tools breaking
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TBProfiler v6.6.1

19 Feb 10:56
@jodyphelan jodyphelan
v6.6.1
cc79ac3
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TBProfiler v6.6.1

Changes

  • Fix typo (#424)
  • Add empty 'source' and 'original_mutation' fields to annotation dictionary (#424)
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TBProfiler v6.6.0

16 Feb 10:46
@jodyphelan jodyphelan
v6.6.0
27aa814
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TBProfiler v6.6.0

Change

Important

This version update changes the implementation of the epistais rule which may change the resistance predictions for bedaquile, clofazimine and kanamycin. Resistance is new reported unless an abrogating variant is completely fixed (100% frequency in reads). If frequency is 10% than the frequency of the abriogating variant, a note is made indicating that the episatis rule may not apply.

  • Updated system for providing epistasis rules
  • Add generic profile plugin
  • Update conda file
  • Updated the default docx template
  • Add software and versions to output
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TBProfiler v6.5.0

02 Dec 15:05
@jodyphelan jodyphelan
v6.5.0
245a797
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TBProfiler v6.5.0

Changes

  • replace fa2vcf
  • make multisample vcf processing parallel
  • fix typo in default template
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TBProfiler v6.4.1

18 Nov 17:46
@jodyphelan jodyphelan
v6.4.1
31440f7
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TBProfiler v6.4.1

Changes

  • Fix for #402
  • New plugin class
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TBProfiler v6.4.0

31 Oct 13:40
@jodyphelan jodyphelan
v6.4.0
070877f
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TBProfiler v6.4.0

Changes

  • Create new class-based docx templating allowing plugins to be installed
  • Default behaviour for rules is to just add a comment
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TBProfiler v6.3.0

17 Jul 10:00
@jodyphelan jodyphelan
v6.3.0
91dfe78
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TBProfiler v6.3.0

What's Changed

Important

This is a critical update that will change resistance calls in some samples. It fixes an issue where frameshifts were called in fbiC leading to delamanid and pretomanid resistance calls (see this issue for more)

New Features

  • Fixed overcalling of frameshifts in fbiC
  • Packaged database updated
  • Added schema versioning to result json
  • Added docx output plugins

Bug fixes

  • Fixed missing positions section in txt output
  • Fixed issue where collate gave an error when running with only La lineage sampless

Documentation

Full Changelog: v6.2.1...v6.3.0

Contributors

marvinkobit
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