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gatk-3.8/testdata/ValidatingPileupTargets.list

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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... git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@439 348d0f76-0448-11de-a6fe-93d51630548a
2009-04-16 05:41:30 +08:00
# e.coli
/humgen/gsa-scr1/GATK_Data/Validation_Data/MV1994.bam /humgen/gsa-scr1/GATK_Data/Validation_Data/Escherichia_coli_K12_MG1655.fasta *
# daughter chrom 6 deep coverage
/broad/1KG/DCC/data/NA12878/alignment/NA12878.chrom6.SRP000032.2009_02.bam /broad/1KG/reference/human_b36_both.fasta 6:1-10,000,00
# daughter chrom 1 deep coverage
/broad/1KG/DCC/data/NA12878/alignment/NA12878.chrom1.SRP000032.2009_02.bam /broad/1KG/reference/human_b36_female.fasta *
# mother of trio individual low coverage
/broad/1KG/DCC/data/NA12892/alignment/NA12892.SRP000031.2009_02.bam /broad/1KG/reference/human_b36_female.fasta *
# Pilot 3
/broad/1KG/pilot3/sams/NA12892.bam /seq/references/Homo_sapiens_assembly18/v0/Homo_sapiens_assembly18.fasta *
# anthony PCR lane
/seq/dirseq/aphilipp/combo/sequences/pcr/samfiles/10035.5.clean.sam /seq/references/Homo_sapiens_assembly18/v0/Homo_sapiens_assembly18.fasta *
# anthony PCR lane
/seq/dirseq/aphilipp/combo/sequences/hs/samfiles/30CLA.5.clean.sam /seq/references/Homo_sapiens_assembly18/v0/Homo_sapiens_assembly18.fasta *
# WGS tumor
#/broad/1KG/pilot3/sams/NA12892.bam /seq/references/Homo_sapiens_assembly18/v0/Homo_sapiens_assembly18.fasta *