February 1, 2017
Viewe1b17d3

follow renaming of union classes in S4Vectors

Herve Pages authored on 01/02/2017 13:23:02
December 3, 2015
Viewf053c5f

general cleanup and fixes, doc updates

Michael Lawrence authored on 03/12/2015 21:11:09
November 23, 2015
Viewead94b3

add ability to call GMAP

Michael Lawrence authored on 23/11/2015 23:25:34
February 12, 2014
View0379507

clip_overlaps should be clip_overlap

Michael Lawrence authored on 12/02/2014 17:13:58
January 14, 2014
View8e9167b

clip_overlaps added to GsnapParam

Michael Lawrence authored on 14/01/2014 19:12:55
September 10, 2013
View119984f

actually check in the gmap-mode fix

Michael Lawrence authored on 10/09/2013 03:42:15
September 9, 2013
View3dd2c1f

fix default (NULL) for gmap-mode argument to gsnap

Michael Lawrence authored on 09/09/2013 21:59:47
July 14, 2013
View2839838

Support terminal_threshold parameter, and use different defaults for DNA vs. RNA. This means a big improvement in alignment quality for DNA.

Michael Lawrence authored on 14/07/2013 00:37:00
November 9, 2012
Viewc64187e

Check that genome argument is provided in GsnapParam. No way to get a safe default for this one.

Michael Lawrence authored on 09/11/2012 12:54:49
September 7, 2012
Viewe2b4bdb

Match up GsnapParams@splicing with new use_splicing gsnap parameter

Michael Lawrence authored on 07/09/2012 17:37:14
September 6, 2012
Viewa347f0e

Fix novelsplicing coercion so that it specifies the 0/1 flag (Greg's second issue).

Michael Lawrence authored on 06/09/2012 23:15:38
View9facdd9

Rewrite the GsnapParam constructor to coerce its arguments to the slot types.

Michael Lawrence authored on 06/09/2012 12:01:42
August 22, 2012
Viewe8f9c3a

fixed bug in handling 'errors' slot of GsnapParams objects

Cory Barr authored on 22/08/2012 22:25:34
August 17, 2012
Viewfb3917e

novel_splicing GSNAP param should default to FALSE (not 0) in GsnapParams()

Michael Lawrence authored on 17/08/2012 20:18:15
August 2, 2012
Viewb22faf0

renaming gmapR2 to gmapR: it lives again

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