Permalink
Switch branches/tags
Nothing to show
Commits on Dec 7, 2012
  1. README fix again

    wwood committed Dec 7, 2012
  2. README fix

    wwood committed Dec 7, 2012
  3. Update README.rdoc

    wwood committed Dec 7, 2012
Commits on Dec 1, 2012
Commits on Nov 5, 2012
  1. Version bump to 0.1.0

    Ben J. Woodcroft
    Ben J. Woodcroft committed Nov 5, 2012
Commits on Aug 31, 2012
  1. Fix bug where bin/gag was not correctly passing along the sequence co…

    Ben J. Woodcroft
    Ben J. Woodcroft committed Aug 31, 2012
    …ntexts to PileupIterator
  2. more cmdline options and requirements, documentation

    Ben J. Woodcroft
    Ben J. Woodcroft committed Aug 31, 2012
Commits on May 18, 2012
  1. more doco

    Ben J. Woodcroft
    Ben J. Woodcroft committed May 18, 2012
  2. Add reference to Loman et. al. 2012

    Ben J. Woodcroft
    Ben J. Woodcroft committed May 18, 2012
Commits on May 17, 2012
  1. Rakefile_update

    Ben J. Woodcroft
    Ben J. Woodcroft committed May 17, 2012
  2. fix tests so they are proper pileup format - tabs not spaces

    Ben J. Woodcroft
    Ben J. Woodcroft committed May 17, 2012
  3. Version bump to 0.0.1

    Ben J. Woodcroft
    Ben J. Woodcroft committed May 17, 2012
  4. finished adding support for a whitelisted set of possible GAG errors …

    Ben J. Woodcroft
    Ben J. Woodcroft committed May 17, 2012
    …and abandoning the XYX filter
Commits on May 16, 2012
  1. started integrating more specific cases for fixing GAG errors, breaki…

    Ben J Woodcroft
    Ben J Woodcroft committed May 16, 2012
    …ng things
  2. modified README to be more specific and helpful

    Ben J Woodcroft
    Ben J Woodcroft committed May 16, 2012
Commits on May 9, 2012
  1. update doco

    Ben J. Woodcroft
    Ben J. Woodcroft committed May 9, 2012
Commits on Apr 10, 2012
  1. allow double-checking of gag errors by comparison with open reading f…

    Ben J. Woodcroft
    Ben J. Woodcroft committed Apr 10, 2012
    …rames
Commits on Apr 4, 2012
  1. gitignores, properly indent bin/gag, change how bin/gag arguments are…

    Ben J. Woodcroft
    Ben J. Woodcroft committed Apr 4, 2012
    … handled internally
  2. various fixes, particularly don't accept gagging reads that have mism…

    Ben J. Woodcroft
    Ben J. Woodcroft committed Apr 4, 2012
    …atches in the X of the XYX
Commits on Apr 2, 2012
  1. point to the no_debug pileup_iterator

    Ben J Woodcroft
    Ben J Woodcroft committed Apr 2, 2012
  2. remove debug comments

    Ben J Woodcroft
    Ben J Woodcroft committed Apr 2, 2012
  3. stderr not stdout by default

    Ben J Woodcroft
    Ben J Woodcroft committed Apr 2, 2012
  4. default to stderr not stdout for logging, fix warning message when so…

    Ben J Woodcroft
    Ben J Woodcroft committed Apr 2, 2012
    …me gags have no sequences to fix
  5. remove dependence on Bio::Faster, test for sequences that have commen…

    Ben J Woodcroft
    Ben J Woodcroft committed Apr 2, 2012
    …ts and sequences that are devoid of gag errors
  6. initial commit

    Ben J Woodcroft
    Ben J Woodcroft committed Apr 2, 2012
  7. Version bump to 0.0.0

    Ben J Woodcroft
    Ben J Woodcroft committed Apr 2, 2012
  8. Initial commit to bio-gag.

    Ben J Woodcroft
    Ben J Woodcroft committed Apr 2, 2012