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Does anyone know the link to download 1000 Genomes human SNPs in GVF format?
I can only find VCF format and am clueless on converting it to GVF.
I can only find VCF format and am clueless on converting it to GVF.
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The 1000 Genomes project does not distrubute any data in GVF format
You can get the pilot snps on GRCh37 in GVF format from Ensembl
ftp://ftp.ensembl.org/pub/release-62.../homo_sapiens/
For how to convert between the 2 formats I would suggest writing something your self using the description here
http://www.sequenceontology.org/resources/gvf.html
as I don't think anyone else has written a converter yet -
GVF to VCF converter
I have written a GVF to VCF converter (only in that direction)
It is available on google code now.
http://code.google.com/p/gvf2vcf/
if someone likes, they can make a VCF to GVF converter... I'm not yet planning to make one (unless the need arises)
Disclaimer: use at your own risk!! please report bugs/ideasComment
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Sorry for bumping this 4 years old thread. I tried to get the code for gvf2vcf.pl, but the link is broken. Is there another link to get the code?
Thanks,
YingComment
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Here is a different script to do the same:
https://github.com/Ensembl/ensembl-v...isc/gvf2vcf.plComment
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