gatk-3.8

Commit Graph

Author	SHA1	Message	Date
Mauricio Carneiro	b22a3d6508	Functional VCF output. It is outputting a VCF with the 'second best guess' for the alternate allele correctly. Annotations are added at the pool level, but may get overwritten at the lane and site level. Still need to implement the merging of the the annotations at higher levels.	2011-08-04 17:49:08 -04:00
Mauricio Carneiro	a58ddab93b	minQual and minPower filters added. VCF output added. Calls are now made based on the likelihood AC model. Two filters are applied: minQual and minPower. Output is now a VCF file with the variant context. It's now called the gatk's PoolCaller, no longer Replication Validation framework. Lots of testing ensue....	2011-07-28 18:58:36 -04:00
David Roazen	3c9497788e	Reorganized the codebase beneath top-level public and private directories, removing the playground and oneoffprojects directories in the process. Updated build.xml accordingly.	2011-06-28 06:55:19 -04:00

Author

SHA1

Message

Date

Mauricio Carneiro

b22a3d6508

Functional VCF output.

It is outputting a VCF with the 'second best guess' for the alternate allele correctly. Annotations are added at the pool level, but may get overwritten at the lane and site level. Still need to implement the merging of the the annotations at higher levels.

2011-08-04 17:49:08 -04:00

Mauricio Carneiro

a58ddab93b

minQual and minPower filters added. VCF output added.

Calls are now made based on the likelihood AC model. Two filters are applied: minQual and minPower. Output is now a VCF file with the variant context. It's now called the gatk's PoolCaller, no longer Replication Validation framework. Lots of testing ensue....

2011-07-28 18:58:36 -04:00

David Roazen

3c9497788e

Reorganized the codebase beneath top-level public and private directories,

removing the playground and oneoffprojects directories in the process. Updated
build.xml accordingly.

2011-06-28 06:55:19 -04:00

3 Commits (5cc1e72fdbb179a54d295f835b52bf11399edc59)