Error:VCF version must be v4.0 or v4.1:
I ran
vcftools --gzvcf raw_variants.vcf.gz --freq --chr 1 --out chr1_analysis
But I got
VCFtools - v0.1.11
(C) Adam Auton 2009
Parameters as interpreted:
--gzvcf raw_variants.vcf.gz
--chr 1
--freq
--out chr1_analysis
Using zlib version: 1.2.8
Index file is older than variant file. Will regenerate.
Building new index file.
Error:VCF version must be v4.0 or v4.1:
You are using version VCFv4.2
I did not find vcf version 4.0 or 4.1
1 answer
your VCFTools is just too old and only recognizes the old VCF formats.
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Pierre Lindenbaum
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