Mark DePristo e0c189909f Added support for breakpoint alleles ... -- See https://getsatisfaction.com/gsa/topics/support_vcf_4_1_structural_variation_breakend_alleles?utm_content=topic_link&utm_medium=email&utm_source=new_topic -- Added integrationtest to ensure that we can parse and write out breakpoint example		2012-02-23 12:14:48 -05:00
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vcf	…
HiSeq.10000.bgzip.vcf.gz	Adding bgzip vcf file for unit tests	2011-09-21 15:39:45 -04:00
HiSeq.10000.vcf	…
HiSeq.10000.vcf.gz	GZIP VCF for testing	2011-08-19 09:05:39 -04:00
TabularDataTest.dat	…
TabularDataTest2.dat	…
ValidatingPileupTargets.list	…
breakpoint-example.vcf	Added support for breakpoint alleles	2012-02-23 12:14:48 -05:00
ceutrio.ped	Oops, forgot the PED test file	2011-10-05 21:09:08 -07:00
defaultGATKConfig.cfg	…
diffTestMaster.vcf	First working version of the DiffNode readers for VCF and BAM files. Unit tests confirm the readers are approximately working. Skeleton of a working DiffObjects walker that will be able to provide detailed information about how exactly two files of the same type differ, so long as the files are supported by the DiffNode structure.	2011-07-04 16:11:42 -04:00
diffTestTest.vcf	First working version of the DiffNode readers for VCF and BAM files. Unit tests confirm the readers are approximately working. Skeleton of a working DiffObjects walker that will be able to provide detailed information about how exactly two files of the same type differ, so long as the files are supported by the DiffNode structure.	2011-07-04 16:11:42 -04:00
exampleBAM.bam	PPP pipeline test	2011-12-11 17:32:21 -05:00
exampleBAM.bam.bai	PPP pipeline test	2011-12-11 17:32:21 -05:00
exampleBAM.simple.bai	Testdata for diffObjects.	2011-07-18 10:47:03 -04:00
exampleBAM.simple.bam	Testdata for diffObjects.	2011-07-18 10:47:03 -04:00
exampleDBSNP.vcf	PPP pipeline test	2011-12-11 17:32:21 -05:00
exampleFASTA.dict	…
exampleFASTA.fasta	…
exampleFASTA.fasta.amb	Data Processing Pipeline Test	2011-12-12 00:24:51 -05:00
exampleFASTA.fasta.ann	Data Processing Pipeline Test	2011-12-12 00:24:51 -05:00
exampleFASTA.fasta.bwt	Data Processing Pipeline Test	2011-12-12 00:24:51 -05:00
exampleFASTA.fasta.fai	…
exampleFASTA.fasta.pac	Data Processing Pipeline Test	2011-12-12 00:24:51 -05:00
exampleFASTA.fasta.rbwt	Data Processing Pipeline Test	2011-12-12 00:24:51 -05:00
exampleFASTA.fasta.rpac	Data Processing Pipeline Test	2011-12-12 00:24:51 -05:00
exampleFASTA.fasta.rsa	Data Processing Pipeline Test	2011-12-12 00:24:51 -05:00
exampleFASTA.fasta.sa	Data Processing Pipeline Test	2011-12-12 00:24:51 -05:00
exampleNORG.bam	…
exampleNORG.bam.bai	…
gFFTest.gff	…
genotypes_chr1_ASW_phase3.3_first500.hapmap	…
logisticParamsTest.list	…
overlapTest.bed	Testdata for IntervalStratification	2011-11-10 11:08:34 -05:00
recalConfig_1KG.cfg	…
sampleBedFile.bed	…
small.dbsnp.rod	…
tranches.4.txt	…
tranches.6.txt	…
tranches.raw.dat	…
withSymbolic.b37.vcf	Testdata for IntervalStratification	2011-11-10 11:08:34 -05:00