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gatk3的最后一个经典版本3.8
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257 MiB
Java 95.8%
Scala 3.8%
R 0.2%
JavaScript 0.1%
 
 
 
 
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hanna 9b182e3063 Prep for documenting command-line arguments: delete some arguments that don't make sense any more given 
the state of the traversals and GATK input requirements: all_loci (replaced by walker annotation), max
OTF sorts (bam files must be sorted and indexed), threaded io (replaced by data sharding framework).


git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@1144 348d0f76-0448-11de-a6fe-93d51630548a
 		2009-07-01 18:23:35 +00:00
R Version 0.2.1 (released) of the TableRecalibrator 2009-06-25 22:50:55 +00:00
c Move non-java code out of playground. 2009-03-23 19:31:38 +00:00
doc up on the wiki, removing it from the repo. Ignore my last commit 2009-07-01 15:42:02 +00:00
java Prep for documenting command-line arguments: delete some arguments that don't make sense any more given 2009-07-01 18:23:35 +00:00
packages First step in replacing the Hello, World! document. Revamped the HelloWalker and checked it into the source tree, created a special build file for it, and added it to the packaging tool. 2009-06-30 21:59:54 +00:00
perl checking in new folder for perl scripts AND a simple script that takes an input text file and reference dictionary (.fai) and performs stable sort of the input lines according to the contig order specified by the dictionary. Position of the contig filed to sort on in the input lines is specified as --k POS option. Input lines may specify contigs that are not in the dictionary, in this case the additional contigs will be added at the end of the sorted output, after all known contigs. The sorting order between these additional contigs is simply the order in which they first appear in the input 2009-05-27 16:34:55 +00:00
python Version 0.2.1 (released) of the TableRecalibrator 2009-06-25 22:50:55 +00:00
settings Updates to picard public / private and sam. 2009-06-30 14:50:55 +00:00
shell Version 0.2.1 (released) of the TableRecalibrator 2009-06-25 22:50:55 +00:00
testdata Apprach v2. Added python analysis script, so java no longer must be used to analyses quality score data. About to refactor out lots of unneeded code 2009-06-20 16:00:23 +00:00
build.xml Convert the somatic coverage tool to output from the packaging tool rather than from the dist target. 2009-06-18 21:29:30 +00:00
ivy.xml Add bcel and cleanup. 2009-06-17 19:28:04 +00:00