gatk-3.8

History

ebanks ca1917507f Various improvements and fixes: In indel cleaner: 1. allow the user to specify that he wants to use Picardâs SAMFileWriter sorting on disk instead of having us sort in memory; this is useful if the input consists of long reads. 2. for N-way-out mode: output bams now use the original headers from the corresponding input bams - as opposed to the merged header. This entailed some reworking of the datasources code. 3. intermediate check-in of code that allows user to input known indels to be used as alternate consenses. Not done yet. In UG: fix bug in beagle output for Jared. git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@2805 348d0f76-0448-11de-a6fe-93d51630548a	2010-02-07 04:21:04 +00:00
..
org/broadinstitute/sting	Various improvements and fixes:	2010-02-07 04:21:04 +00:00

ebanks ca1917507f Various improvements and fixes:

In indel cleaner:

1. allow the user to specify that he wants to use Picardâs SAMFileWriter sorting on disk instead of having us sort in memory; this is useful if the input consists of long reads.

2. for N-way-out mode: output bams now use the original headers from the corresponding input bams - as opposed to the merged header.  This entailed some reworking of the datasources code.

3. intermediate check-in of code that allows user to input known indels to be used as alternate consenses.  Not done yet.

In UG: fix bug in beagle output for Jared.



git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@2805 348d0f76-0448-11de-a6fe-93d51630548a

2010-02-07 04:21:04 +00:00

org/broadinstitute/sting

Various improvements and fixes:

2010-02-07 04:21:04 +00:00