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##fileformat=VCFv4.1
##Goby=development (20130411170529)
##FieldGroupAssociations=CHROM=genomic-coordinate,CHROM=cross-sample-field,POS=genomic-coordinate,POS=cross-sample-field,ID=external-identifiers,ID=cross-sample-field,REF=cross-sample-field,ALT=cross-sample-field,QUAL=cross-sample-field,FILTER=cross-sample-field,INFO=cross-sample-field,INFO/BIOMART_COORDS=cross-sample-field,INFO/INDEL=cross-sample-field,INFO/INDEL=indel,INFO/Somatic-P-value(Fisher)[JWZBMNN-PR-02-254-Tumor]=cross-sample-field,INFO/Somatic-P-value(Fisher)[JWZBMNN-PR-02-254-Tumor]=p-value,INFO/Somatic-P-value(Fisher)[JWZBMNN-PR-02-254-Tumor]=statistic,INFO/Somatic-P-value(Fisher)[JWZBMNN-PR-02-254-Tumor]=indexed,FORMAT/GT=genotype,FORMAT/BC=base-calls,FORMAT/GB=good-bases,FORMAT/FB=failed-bases,
##INFO=<ID=BIOMART_COORDS,Number=1,Type=String,Description="Coordinates formatted for use with IGV.">
##INFO=<ID=INDEL,Number=1,Type=Flag,Description="Indicates that the variation is an indel.">
##INFO=<ID=Somatic-P-value(Fisher)[JWZBMNN-PR-02-254-Tumor],Number=1,Type=Float,Description="P-value that a variation is somatic in this particular sample, compared to other germline samples (e.g., germline skin, or mother/father).">
##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype">
##FORMAT=<ID=BC,Number=5,Type=String,Description="Base counts in format A=?;T=?;C=?;G=?;N=?.">
##FORMAT=<ID=GB,Number=1,Type=String,Description="Number of bases that pass base filters in this sample, or ignore string.">
##FORMAT=<ID=FB,Number=1,Type=String,Description="Number of bases that failed base filters in this sample, or ignore string.">
##INFO=<ID=GENE,Number=1,Type=String,Description="Ensembl gene identifier">
##INFO=<ID=GENE_NAME,Number=1,Type=String,Description="Gene name">
##source_20130313.1=vcf-annotate(-1, set by base.pm) -a /ref-start-end-gene-hgnc-sorted.tsv.gz -d /scratchLocal/gobyweb/tmp/238846.1.rascals.q/attributes.lst -c CHROM,FROM,TO,INFO/GENE,INFO/GENE_NAME
#CHROM POS ID REF ALT QUAL FILTER INFO FORMAT KABGEHR-PR-02-254-Normal JWZBMNN-PR-02-254-Tumor
1 26648551 . G C . . BIOMART_COORDS=1:26648551-26648551;Somatic-P-value(Fisher)[JWZBMNN-PR-02-254-Tumor]=1.0 GT:BC:GB:FB 1/1:C=156:156:1 1/1:C=143:143:3
1 26648826 . G A . . BIOMART_COORDS=1:26648826-26648826;Somatic-P-value(Fisher)[JWZBMNN-PR-02-254-Tumor]=1.0 GT:BC:GB:FB 0/1:A=46,G=74:120:8 0/1:A=32,G=64:96:13
1 26653319 . G A . . BIOMART_COORDS=1:26653319-26653319;Somatic-P-value(Fisher)[JWZBMNN-PR-02-254-Tumor]=1.0 GT:BC:GB:FB 0/1:A=23,G=22:45:3 0/1:A=18,G=34:52:2
1 26654937 . G C . . BIOMART_COORDS=1:26654937-26654937;Somatic-P-value(Fisher)[JWZBMNN-PR-02-254-Tumor]=1.0 GT:BC:GB:FB 1/1:C=12:12:0 1/1:C=3:3:0
1 26655208 . C T . . BIOMART_COORDS=1:26655208-26655208;Somatic-P-value(Fisher)[JWZBMNN-PR-02-254-Tumor]=1.0 GT:BC:GB:FB 0/1:T=110,C=143:253:26 0/1:T=95,C=109:204:9
1 26655462 . C T . . BIOMART_COORDS=1:26655462-26655462;Somatic-P-value(Fisher)[JWZBMNN-PR-02-254-Tumor]=1.0 GT:BC:GB:FB 0/1:T=13,C=23:36:2 0/1:T=12,C=18:30:10
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