Hi,
I'd like to filter my vcf for snps containing certain REF and ALT alleles. From
the documentation I learn that I can use something like:
bcftools-1.0 filter -i '(%REF=="A" & %ALT=="T")' ChrAll.vcf
however when I try that, I get an error:
[filter.c:1084 filters_init1] Error: the tag "INFO/REF" is not defined in the
VCF header
How can I solve this?
Thanks in advance,
Jack
Jack Van Handenhove
Bioinformatics Researcher
Bayer CropScience NV
Innovation Center - Computational Life Sciences
Technologiepark 38,
9052 Zwijnaarde (Gent)
Belgium
Tel: +32 9 243 05 63
Fax: +32 9 224 06 94
E-mail: jack.vanhandenh...@bayer.com<mailto:jack.vanhandenh...@bayer.com>
Web: http://www.bayercropscience.com<http://www.bayercropscience.com/>
BTW en ondernemingsnummer: BE 0412 639 087
RPR Brussel
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