diff --git a/testdata/vcfExmaple.vcf4 b/testdata/vcf/vcfWithGenotypes.vcf similarity index 92% rename from testdata/vcfExmaple.vcf4 rename to testdata/vcf/vcfWithGenotypes.vcf index 9f9098a07..9bf4f4750 100644 --- a/testdata/vcfExmaple.vcf4 +++ b/testdata/vcf/vcfWithGenotypes.vcf @@ -21,4 +21,5 @@ 20 1110696 rs6040355 A G,T 67 PASS NS=2;DP=10;AF=0.333,0.667;AA=T;DB GT:GQ:DP:HQ 1|2:21:6:23,27 2|1:2:0:18,2 2/2:35:4 20 1230237 . T . 47 PASS NS=3;DP=13;AA=T GT:GQ:DP:HQ 0|0:54:7:56,60 0|0:48:4:51,51 0/0:61:2 20 1234567 microsat1 GTCT G,GTACT 50 PASS NS=3;DP=9;AA=G GT:GQ:DP 0/1:35:4 0/2:17:2 1/1:40:3 -20 1234587 supersite GGGG G 50 PASS NS=3;DP=9;AA=G GT:GQ:DP 0/1:35:4 0/0:17:2 1/1:40:3 \ No newline at end of file +20 1234587 supersite GGGG G 50 PASS NS=3;DP=9;AA=G GT:GQ:DP 0/1:35:4 0/0:17:2 1/1:40:3 +22 17580633 . ACNCCTAANCC AC 100 PASS NS=3;DP=9;AA=G GT:GQ:HQ 0|0:48:1:51,51 1|0:48:8:51,51 1/1:43:5:.,. \ No newline at end of file diff --git a/testdata/vcf/vcfWithoutGenotypes.vcf b/testdata/vcf/vcfWithoutGenotypes.vcf new file mode 100644 index 000000000..b8617aa6a --- /dev/null +++ b/testdata/vcf/vcfWithoutGenotypes.vcf @@ -0,0 +1,20 @@ +##fileformat=VCFv4.0 +##fileDate=20090805 +##source=myImputationProgramV3.1 +##reference=1000GenomesPilot-NCBI36 +##phasing=partial +##INFO= +##INFO= +##INFO= +##INFO= +##INFO= +##INFO= +##FILTER= +##FILTER= +#CHROM POS ID REF ALT QUAL FILTER INFO +20 14370 rs6054257 G A 29 PASS NS=3;DP=14;AF=0.5;DB;H2 +20 17330 . T A 3 q10 NS=3;DP=11;AF=0.017 GT:GQ:DP:HQ +20 1110696 rs6040355 A G,T 67 PASS NS=2;DP=10;AF=0.333,0.667;AA=T;DB +20 1230237 . T . 47 PASS NS=3;DP=13;AA=T GT:GQ:DP:HQ +20 1234567 microsat1 GTCT G,GTACT 50 PASS NS=3;DP=9;AA=G +20 1234587 supersite GGGG G 50 PASS NS=3;DP=9;AA=G \ No newline at end of file