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Commits on Jun 21, 2021

• fix saveAlignmentProbs argument naming inconsistency (fixes #23)

  ahonkela

  committed
  c08da24

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Commits on Oct 14, 2016

• Merge pull request #21 from zertan/master

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  ahonkela

  authored
  f7fc1de

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• Change phi argument name to saveAlignmentProbs

  

  Daniel Hermansson

  committed
  674ba0d

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Commits on Oct 4, 2016

• Add read headers to phi output.

  

  Daniel Hermansson

  committed
  14d93a1

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Commits on Oct 3, 2016

• Add option to output read probabilities.

  

  Daniel Hermansson

  committed
  0dc0848

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Commits on May 8, 2015

• add link to webpage at README.md

  mqbssppe

  committed
  72fe9d9

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Commits on Feb 3, 2015

• Adding change proposed by bydmitry to fix extraction of gene names form

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  Peter Glaus

  committed
  1ab7515

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Commits on Sep 10, 2014

• Update contact information

  ahonkela

  committed
  e887790

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Commits on Aug 28, 2014

• Sync Makefile.mac with Makefile.

  ahonkela

  committed
  8bb096f

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• Merge branch 'preproc_tools'

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  ahonkela

  committed
  6e47c68

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Commits on Aug 27, 2014

• Add .gitignore.

  ahonkela

  committed
  b0fa968

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• Add support for new Ensembl gtf files.

  ahonkela

  committed
  e8d0059

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• Add fastagrep.sh from MMSEQ.

  ahonkela

  committed
  34ceed3

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Commits on Apr 15, 2014

• Fix includes.

  ahonkela

  committed
  c1681a0

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• Fix Ensembl GTF input and output.

  ahonkela

  committed
  51718c6

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Commits on Mar 4, 2014

• Updating Makefile and syncing version number.

  

  Peter Glaus

  committed
  eaf075a

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• Updating wiki link in README.md.

  

  Peter Glaus

  committed
  7c52442

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Commits on Feb 17, 2014

• making READMA a markdown file for nice rendereing on github

  jameshensman

  committed
  8a178e7

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Commits on Feb 4, 2014

• Use ArgumentParser for cleaner command line interface.

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  ahonkela

  committed
  bd611ba

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Commits on Feb 3, 2014

• Makefile for Mac compilation.

  ahonkela

  committed
  944df3f

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Commits on Jan 31, 2014

• Support both gzipped and non-gzipped input files.

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  ahonkela

  committed
  920f504

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Commits on Jan 30, 2014

• Support Ensembl gtf files with no explicit 'gene' entries by

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  ahonkela

  committed
  6627be6

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• Skip single-exon genes.

  ahonkela

  committed
  531dbf0

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• Code cleanups.

  ahonkela

  committed
  721afb8

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• Fully working gene sequence extraction for GENCODE GTF files.

  ahonkela

  committed
  cb4478f

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Commits on Jan 29, 2014

• Add test inputs for gtftool.

  ahonkela

  committed
  1123a3c

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• Strand handling.

  ahonkela

  committed
  118512a

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Commits on Jan 28, 2014

• Added simple fasta reader, not feature complete yet.

  ahonkela

  committed
  1f4f8de

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Commits on Jan 23, 2014

• Start working on gtf parser to extract unspliced gene sequences.

  

  Antti Honkela

  committed
  6622e18

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Commits on Jan 13, 2014

• Updating readme.

  

  Peter Glaus

  committed
  810a59d

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Commits on Nov 14, 2013

• Merge branch 'master' of /local/private/glausp/gits/bitseq

  

  Peter Glaus

  committed
  02c6119

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• Final timer always verbose in eE.

  

  Peter Glaus

  committed
  e9b559b

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Commits on Nov 11, 2013

• Adding time information into VB output and disabling rhat logging.

  

  Peter Glaus

  committed
  4c17589

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Commits on Nov 3, 2013

• Fixing wrong CPU limit with parameters file.

  

  Peter Glaus

  committed
  44b1fff

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Commits on Oct 29, 2013

• Fixing timer bug in rhatLog.

  

  Peter Glaus

  committed
  c70a195

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