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From: Warren W. K. <wkr...@gm...> - 2014-04-15 10:10:20
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Hi, I am trying to merge site lists in vcf format. When I run this command: bcftools merge --info-rules AC:sum file1.vcf.gz file2.vcf.gz I get this error: Only fixed-length vectors are supported with "sum", cannot run with AC What am I doing wrong? Thanks, Winni Kretzschmar PS The contents of the two files is below. Both files have been indexed using bcftools index less file1.vcf.gz ##fileformat=VCFv4.2 ##INFO=<ID=AN,Number=1,Type=Integer,Description="Total Allele Count"> ##INFO=<ID=AC,Number=A,Type=Integer,Description="Alternate Allele Count"> #CHROM POS ID REF ALT QUAL FILTER INFO 1 10505 . A T 100 PASS AC=1;AN=5070 1 10506 . C G 100 PASS AC=1;AN=5070 1 10511 . G A 100 PASS AC=1;AN=5070 1 10539 . C A 100 PASS AC=3;AN=5070 1 10542 . C T 100 PASS AC=1;AN=5070 1 10579 . C A 100 PASS AC=1;AN=5070 less file2.vcf.gz ##fileformat=VCFv4.2 ##INFO=<ID=AC,Number=A,Type=Integer,Description="Allele count in genotypes"> ##INFO=<ID=AN,Number=1,Type=Integer,Description="Total number of alleles in called genotypes"> #CHROM POS ID REF ALT QUAL FILTER INFO 1 52238 . T G 0 PASS AC=4148;AN=4198 1 55299 . C T 0 PASS AC=744;AN=4198 1 55315 . A T 0 PASS AC=1;AN=4198 1 55326 . T C 0 PASS AC=62;AN=4198 1 57033 . T C 0 PASS AC=86;AN=4198 1 57064 . G A 0 PASS AC=74;AN=4198 |