Queue scripts to process call and assess callsets (for AGBT13)

Browse Source

a quick data-processing pipeline:
-- only adding basic steps from aligned bam to recalibrated bam.
-- paired down from the multitude of options of the data processing pipeline
-- one bam in, one bam out
-- Implemented the "fly" mode to the quick processing pipeline -- because "quick" wasn't quick enough...

calling and assess pipeline:
-- takes in a list of bams
-- calls using both UG and HC with and without BQSR
-- can optionally skip bqsr if recalibration report is not provided (assumes bam already is recalibrated)

GSATDG-76
GSATDG-75
GSATDG-58
GSATDG-57
GSATDG-56
GSATDG-52
GSATDG-51

...

This commit is contained in:

Mauricio Carneiro 2013-02-13 15:02:32 -05:00

parent 1690be0866

commit 8ae2e7be4f

Show all changes Ignore whitespace when comparing lines Ignore changes in amount of whitespace Ignore changes in whitespace at EOL

Show Stats Download Patch File Download Diff File Expand all files Collapse all files

Diff Content Not Available