# 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 *