November 24, 2015
View5659f09

add raw total count statistic to tallies (everything else now qual filtered)

Michael Lawrence authored on 24/11/2015 22:19:59
October 28, 2015
View8418591

resurrect improvements that we reverted before the April release, expect breakage for a while

Michael Lawrence authored on 28/10/2015 18:51:00
April 14, 2015
Viewd5ed124

Reverted to r101133, along with NAMESPACE fixes

Michael Lawrence authored on 14/04/2015 21:40:44
March 25, 2015
Viewf58d4e9

update gstruct/bamtally

Michael Lawrence authored on 25/03/2015 20:25:05
August 11, 2014
Viewc78be69

add codon tally support. No vbump yet

Gabriel Becker authored on 11/08/2014 23:42:48
June 6, 2014
View52b3ca6

update gstruct (hopefully fix build)

Michael Lawrence authored on 06/06/2014 22:10:15
April 30, 2014
View144f6bb

update bam_tally, mostly to fix memory leaks but we are also moving towards a decent indel realigner

Michael Lawrence authored on 30/04/2014 17:04:17
April 2, 2014
View17db5e7

update GSTRUCT (bam_tally); add include_soft_clip parameter for counting over soft clips of a given max length (more accurate allele frequency)

Michael Lawrence authored on 02/04/2014 22:03:40
September 20, 2013
View4d5cc80

update to latest gstruct; brings faster bam_tally (for high coverage regions) and read-group filtering support in bam_tally

Michael Lawrence authored on 20/09/2013 02:05:42
March 26, 2013
View95e6ece

Update gstruct; bam_tally now supports ignoring PCR/optical duplicates.

Michael Lawrence authored on 26/03/2013 21:37:34
October 10, 2012
View36cb64f

added new version of gmap and gstruct src code

Cory Barr authored on 10/10/2012 00:38:59
View5fa057e

removing old gstruct and gmap src code before adding new src

Cory Barr authored on 10/10/2012 00:34:30
September 6, 2012
Viewf744b21

Prevent crashing of bam_tally when given a region without any alignments. Patch already sent to Tom.

Michael Lawrence authored on 06/09/2012 00:41:18
August 2, 2012
Viewb22faf0

renaming gmapR2 to gmapR: it lives again

Michael Lawrence authored on 02/08/2012 22:24:24