aaron
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5b1c23a7f2
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changes to fix and test the interval based traversals
git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@1095 348d0f76-0448-11de-a6fe-93d51630548a
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2009-06-25 17:54:15 +00:00 |
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aaron
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6ee64c7e43
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added changes to support alec toUnmappedRead seek. Huge improvements (orders of magnitude) in unmapped read performance.
git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@1021 348d0f76-0448-11de-a6fe-93d51630548a
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2009-06-16 22:15:56 +00:00 |
hanna
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71e3825fa1
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First pass of a walker for Eric that searches through an input BAM file for unclean reads, injecting the cleaned reads in their place and outputting the composite result.
git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@989 348d0f76-0448-11de-a6fe-93d51630548a
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2009-06-11 20:18:13 +00:00 |
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aaron
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195b4ea7b4
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a rename for consistancy of Sam to SAM, creating a genotype utils dir, and moving the GLF code into it.
git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@984 348d0f76-0448-11de-a6fe-93d51630548a
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2009-06-11 17:46:06 +00:00 |
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aaron
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36c98b9d6c
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added tools to test read based traversals using the artificial in-memory SAM file tools, and testing of the PrintReadsWalker
git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@957 348d0f76-0448-11de-a6fe-93d51630548a
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2009-06-10 01:52:25 +00:00 |
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aaron
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eb962fe52a
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adding an artificial sam file writer, used to unit test some of the walkers (mainly the PrintReadsWalker)
git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@956 348d0f76-0448-11de-a6fe-93d51630548a
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2009-06-09 21:47:49 +00:00 |
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aaron
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109bef6c08
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We're no longer in the read-dropping business.
git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@901 348d0f76-0448-11de-a6fe-93d51630548a
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2009-06-04 22:37:51 +00:00 |