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  • Help with converting files to BEAGLE format

    Hello,
    I am a clinical geneticist (MD) with little bioinformatics background, but I am trying to teach myself how to analyze my research exome data by myself... I don't want to miss out on the fun!
    I have been able to convert my .vcf files to ped/map files (plink format).
    I am now trying to convert either my vcf file to Beagle format or my ped/map files to Beagle format files.
    I am encountering all sorts of problems.
    I've tried using a germline utility with Beagle, but to no avail.
    I was wondering if someone could give me simple- step-by-step instructions on how to do this.
    I would really appreciate it!
    Thanks.

  • #2
    Hi BW22,

    It's certainly not a step by step answer but I stumbled across this whilst looking for something else and remembered your question:



    Requires you to install vcftools of course, but maybe someone else can give step by step instructions.
    Nicholas Blackburn | PhD Candidate
    Tasmanian Inherited Cancer Centre
    Menzies Research Institute Tasmania
    Hobart TAS 7000 | www.menzies.utas.edu.au

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