Mercurial > repos > devteam > vcffilter
comparison test-data/vcffilter-test1.vcf @ 0:34c3b846e0b6 draft
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| author | devteam |
|---|---|
| date | Thu, 19 Mar 2015 14:27:51 -0400 |
| parents | |
| children |
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| -1:000000000000 | 0:34c3b846e0b6 |
|---|---|
| 1 ##fileformat=VCFv4.0 | |
| 2 ##fileDate=20090805 | |
| 3 ##source=myImputationProgramV3.1 | |
| 4 ##reference=1000GenomesPilot-NCBI36 | |
| 5 ##phasing=partial | |
| 6 ##filter="DP > 10" | |
| 7 ##INFO=<ID=NS,Number=1,Type=Integer,Description="Number of Samples With Data"> | |
| 8 ##INFO=<ID=AN,Number=1,Type=Integer,Description="Total number of alleles in called genotypes"> | |
| 9 ##INFO=<ID=AC,Number=.,Type=Integer,Description="Allele count in genotypes, for each ALT allele, in the same order as listed"> | |
| 10 ##INFO=<ID=DP,Number=1,Type=Integer,Description="Total Depth"> | |
| 11 ##INFO=<ID=AF,Number=.,Type=Float,Description="Allele Frequency"> | |
| 12 ##INFO=<ID=AA,Number=1,Type=String,Description="Ancestral Allele"> | |
| 13 ##INFO=<ID=DB,Number=0,Type=Flag,Description="dbSNP membership, build 129"> | |
| 14 ##INFO=<ID=H2,Number=0,Type=Flag,Description="HapMap2 membership"> | |
| 15 ##FILTER=<ID=q10,Description="Quality below 10"> | |
| 16 ##FILTER=<ID=s50,Description="Less than 50% of samples have data"> | |
| 17 ##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype"> | |
| 18 ##FORMAT=<ID=GQ,Number=1,Type=Integer,Description="Genotype Quality"> | |
| 19 ##FORMAT=<ID=DP,Number=1,Type=Integer,Description="Read Depth"> | |
| 20 ##FORMAT=<ID=HQ,Number=2,Type=Integer,Description="Haplotype Quality"> | |
| 21 ##ALT=<ID=DEL:ME:ALU,Description="Deletion of ALU element"> | |
| 22 ##ALT=<ID=CNV,Description="Copy number variable region"> | |
| 23 #CHROM POS ID REF ALT QUAL FILTER INFO FORMAT NA00001 NA00002 NA00003 | |
| 24 20 14370 rs6054257 G A 29 PASS AF=0.5;DP=14;NS=3;DB;H2 GT:GQ:DP:HQ 0|0:48:1:51,51 1|0:48:8:51,51 1/1:43:5:.,. | |
| 25 20 17330 . T A 3 q10 AF=0.017;DP=11;NS=3 GT:GQ:DP:HQ 0|0:49:3:58,50 0|1:3:5:65,3 0/0:41:3:.,. | |
| 26 20 1230237 . T . 47 PASS AA=T;DP=13;NS=3 GT:GQ:DP:HQ 0|0:54:.:56,60 0|0:48:4:51,51 0/0:61:2:.,. |