Mauricio Carneiro 4aad7e23ef New ReduceReads v2 with unclipped variant regions and soft-clipped bases ... * Re-wrote the sliding window approach to allow the variant region not to clip the reads that overlap it. * Updated consensus to include only reads that were not passed on by the variant region, header counts are updated on the fly to avoid recompute * Added soft clipped bases to ReduceReads analysis by unclipping high quality soft-clips then re-clipping after reduce reads * Updated all integration tests		2012-06-08 14:58:31 -04:00
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net/sf	Merged bug fix from Stable into Unstable	2012-02-13 16:37:11 -05:00
org/broadinstitute/sting	New ReduceReads v2 with unclipped variant regions and soft-clipped bases	2012-06-08 14:58:31 -04:00