ASSEMBLY_ID XXXX
#CNV_WINDOW_WIDTH 2000
#COSMIC COSMIC v48
#DBSNP_BUILD dbSNP build 132
#DGV_VERSION 9
#FORMAT_VERSION 1.7
#GENERATED_AT XXX
#GENERATED_BY cgatools
#GENE_ANNOTATIONS NCBI build 37.2
#GENOME_REFERENCE NCBI build 37
#MIRBASE_VERSION miRBase version 16
#PFAM_DATE XXX
#REPMASK_GENERATED_AT XXX
#SAMPLE XXX
#SEGDUP_GENERATED_AT XXX
#SOFTWARE_VERSION 1.12.0.47
#TYPE VAR-OLPL
>locus ploidy chromosome begin end zygosity varType reference allele1Seq allele2Seq allele1Score allele2Score allele1HapLink allele2HapLink xRef evidenceIntervalId allele1ReadCount allele2ReadCount referenceAlleleReadCount totalReadCount allele1Gene allele2Gene pfam miRBaseId repeatMasker segDupOverlap relativeCoverage calledPloidy
1 2 chr1 0 10000 no-call no-ref = ? ?
2 2 chr1 10000 11090 no-call complex = ? ? 1.13 N
3 2 chr1 11090 11105 hom ref = = = 1.13 N
4 2 chr1 11105 11170 no-call complex = ? ? 1.13 N
5 2 chr1 11170 11195 hom ref = = = 1.13 N
6 2 chr1 11195 11211 no-call complex = ? ? 1.13 N
7 2 chr1 11211 11227 hom ref = = = 1.13 N
vtools import --format CGA /path/to/masterVarBeta$ID.tsv.bz2 --build hg19