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1000 Genomes GVF Format

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  • dan
    replied
    Here is a different script to do the same:
    https://github.com/Ensembl/ensembl-v...isc/gvf2vcf.pl

    Leave a comment:


  • yingchen
    replied
    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,

    Ying

    Leave a comment:


  • NGSfan
    replied
    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/ideas

    Leave a comment:


  • laura
    replied
    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

    Leave a comment:


  • NextGenSeq
    started a topic 1000 Genomes GVF Format

    1000 Genomes GVF Format

    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.
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