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Commits on Feb 5, 2021

• Merge pull request #455 from CGATOxford/{IS}_py38_errors

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  IanSudbery

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• Errors picked up by python 3.8's syntax checker

  IanSudbery

  committed
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Commits on Feb 1, 2021

• Merge pull request #452 from yech1990/master

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  IanSudbery

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  a14dea7

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Commits on Jan 25, 2021

• fix

  y9c

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Commits on Jan 22, 2021

• fix read1

  y9c

  committed
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Commits on Nov 18, 2020

• Update version.py

  

  Tom Smith

  authored
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Commits on Nov 13, 2020

• Update pysam version required.

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  Tom Smith

  authored
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Commits on Nov 4, 2020

• Version bump

  

  Tom Smith

  authored
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Commits on Nov 3, 2020

• corrects updating of of get_bundles.start so that reads are output before end of contig (#434)

  

  Tom Smith

  authored
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Commits on Oct 29, 2020

• {ts} documentation update (#433)

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  Tom Smith

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• optimized getErrorCorrectMapping() with bktrees (#299)

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  redst4r

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  TomSmithCGAT

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Commits on Oct 28, 2020

• Fix bug with unmapped paired end reads (#443)

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  Daniel-Liu-c0deb0t

  and

  TomSmithCGAT

  authored
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Commits on Sep 13, 2020

• Update README.rst

  

  Tom Smith

  authored
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• Update README.rst

  

  Tom Smith

  authored
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Commits on Aug 13, 2020

• Merge pull request #327 from CGATOxford/{TS}-add_filter_umi_dedup

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  Tom Smith

  authored
  f87525c

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• Merge branch 'master' into {TS}-add_filter_umi_dedup

  

  Tom Smith

  authored
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• Merge pull request #330 from CGATOxford/{TS}-OutputFilteredReads

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  Tom Smith

  authored
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• Merge branch 'master' into {TS}-OutputFilteredReads

  

  Tom Smith

  authored
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• Merge pull request #421 from CGATOxford/{TS}-ignore-read-pair-suffixes

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  Tom Smith

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• Merge branch 'master' into {TS}-ignore-read-pair-suffixes

  

  TomSmithCGAT

  committed
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• Merge pull request #426 from CGATOxford/{TS}_test_travis_py3.7.3

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  Tom Smith

  authored
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• stops samtools sort adding header line which makes tests fail

  

  TomSmithCGAT

  committed
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Commits on Aug 11, 2020

• updates py to 3.7.3 for travis

  

  Tom Smith

  committed
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Commits on Jul 3, 2020

• removes suffix option from barcode extraction (in whitelist)

  

  Tom Smith

  committed
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• removes suffix option from barcode extraction

  

  Tom Smith

  committed
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• debug addBarcode function

  

  Tom Smith

  committed
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• ...and moves addBarcode function back outside class

  

  Tom Smith

  committed
  95363ce

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• renames addBarcode function back to previous name

  

  Tom Smith

  committed
  3227d95

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• simplifies solution for suffixes

  

  Tom Smith

  committed
  2a807ce

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• resolves issue with trailing /1 and /2

  

  Tom Smith

  committed
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Commits on Mar 2, 2020

• adds documentation for options to output filtered reads

  

  Tom Smith

  committed
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• debug setting self.getCellBarcode

  

  Tom Smith

  committed
  f999b7e

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• adds options to ignore read pair id suffixes \1 and \2

  

  Tom Smith

  committed
  83f4ab2

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• Merge pull request #382 from skitcattCRUKMI/master

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  Tom Smith

  authored
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• Merge pull request #401 from CGATOxford/{TS}-update_docs_stats

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  Tom Smith

  authored
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