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EvalMapping.py
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2009-03-23 19:31:38 +00:00 |
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FastaQuals2Fastq.py
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2009-03-23 19:31:38 +00:00 |
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Geli2GFF.py
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Added Hapmap data track (using rodGFF class for GFF file format) to toolkit as a command line option, Hapmap metrics to AlleleFrequencyMetricsWalker, and a python Geli2GFF file converter.
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2009-03-24 03:58:03 +00:00 |
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MergeBAMBatch.py
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Helper utility for merging BAM files
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2009-04-09 20:10:41 +00:00 |
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MergeEvalMapTabs.py
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2009-03-23 19:31:38 +00:00 |
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SAM.py
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2009-03-23 19:31:38 +00:00 |
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SamWalk.py
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2009-03-23 19:31:38 +00:00 |
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SamWalkTest.py
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2009-03-23 19:31:38 +00:00 |
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SimpleSAM.py
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2009-03-23 19:31:38 +00:00 |
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SimulateReads.py
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2009-03-23 19:31:38 +00:00 |
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SpawnMapperJobs.py
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2009-03-23 19:31:38 +00:00 |
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SpawnValidationJobs.py
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2009-03-23 19:31:38 +00:00 |
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StressTestGATK.py
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General purpose pileup code -- you can use these features to obtain detailed pileup data from reads and offsets. Useful for all pileup based walkers. Expanded support for rodSAMPileup to enable the new ValidatingPileupWalker, which takes a samtools pileup output and checks that GATK gives identical output as samtools on a per base and per qual pileup. It's going to be a very useful validation tool.
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2009-04-14 22:13:10 +00:00 |
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ValidateGATK.py
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Better debugging output and testing
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2009-04-16 21:54:56 +00:00 |
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WalkLociTest.py
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2009-03-23 19:31:38 +00:00 |
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Walker.py
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2009-03-23 19:31:38 +00:00 |
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aln_file.nocvs.py
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2009-03-23 19:31:38 +00:00 |
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aln_file.py
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2009-03-23 19:31:38 +00:00 |
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compSNPCalls.py
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2009-03-23 19:31:38 +00:00 |
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countCoverageWithSamtools.py
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2009-03-23 19:31:38 +00:00 |
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farm_commands.py
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Fixed potential bug with next() operation returning empty contexts when a read contains a large deletion. We can now use the look ahead safely...
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2009-04-15 21:41:30 +00:00 |
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fasta.py
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2009-03-23 19:31:38 +00:00 |
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memo.py
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2009-03-23 19:31:38 +00:00 |
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pushback_file.py
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2009-03-23 19:31:38 +00:00 |
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qltout.py
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2009-03-23 19:31:38 +00:00 |
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samtooltest.sh
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2009-03-23 19:31:38 +00:00 |
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tgtc2sam.py
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2009-03-23 19:31:38 +00:00 |
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