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gatk-3.8/public/java/test/org/broadinstitute/sting/utils/sam
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Mauricio Carneiro 5af373a3a1 BQSR with indels integrated! 
* added support to base before deletion in the pileup
   * refactored covariates to operate on mismatches, insertions and deletions at the same time
   * all code is in private so original BQSR is still working as usual in public
   * outputs a molten CSV with mismatches, insertions and deletions, time to play!
   * barely tested, passes my very simple tests... haven't tested edge cases.
 		2012-02-09 18:46:45 -05:00
..
ArtificialPatternedSAMIteratorUnitTest.java Reorganized the codebase beneath top-level public and private directories, 2011-06-28 06:55:19 -04:00
ArtificialSAMFileWriterUnitTest.java Reorganized the codebase beneath top-level public and private directories, 2011-06-28 06:55:19 -04:00
ArtificialSAMQueryIteratorUnitTest.java Reorganized the codebase beneath top-level public and private directories, 2011-06-28 06:55:19 -04:00
ArtificialSAMUtilsUnitTest.java Reorganized the codebase beneath top-level public and private directories, 2011-06-28 06:55:19 -04:00
GATKSAMRecordUnitTest.java BQSR with indels integrated! 2012-02-09 18:46:45 -05:00
ReadUtilsUnitTest.java Unit tests for GATKSAMRecord class 2012-01-26 17:06:36 -05:00