ebanks 940d75171a Big cleaner changes: ... 1. Added a Walker to merge intervals before cleaning 2. (Almost) all Walkers can filter out 454 reads (and do by default) 3. Got rid of -all command and related pieces (time to switch to CleanedReadsInjector) git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@1090 348d0f76-0448-11de-a6fe-93d51630548a		2009-06-25 14:31:24 +00:00
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config	Provide a default logger, some config settings, and some doc updates.	2009-04-29 02:06:05 +00:00
src/org/broadinstitute/sting	Big cleaner changes:	2009-06-25 14:31:24 +00:00
test/org/broadinstitute/sting	Pooling of unmapped reads -- improves runtime of files with tons of unmapped reads by an order of magnitude.	2009-06-23 23:48:06 +00:00