Seqanswers Leaderboard Ad

Collapse
X
 
  • Filter
  • Time
  • Show
Clear All
new posts
  • BW22
    Junior Member
    • Dec 2012
    • 2

    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.
  • NBlackburn
    Junior Member
    • Mar 2012
    • 3

    #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

    Comment

    Latest Articles

    Collapse

    • seqadmin
      Pathogen Surveillance with Advanced Genomic Tools
      by seqadmin




      The COVID-19 pandemic highlighted the need for proactive pathogen surveillance systems. As ongoing threats like avian influenza and newly emerging infections continue to pose risks, researchers are working to improve how quickly and accurately pathogens can be identified and tracked. In a recent SEQanswers webinar, two experts discussed how next-generation sequencing (NGS) and machine learning are shaping efforts to monitor viral variation and trace the origins of infectious...
      03-24-2025, 11:48 AM
    • seqadmin
      New Genomics Tools and Methods Shared at AGBT 2025
      by seqadmin


      This year’s Advances in Genome Biology and Technology (AGBT) General Meeting commemorated the 25th anniversary of the event at its original venue on Marco Island, Florida. While this year’s event didn’t include high-profile musical performances, the industry announcements and cutting-edge research still drew the attention of leading scientists.

      The Headliner
      The biggest announcement was Roche stepping back into the sequencing platform market. In the years since...
      03-03-2025, 01:39 PM

    ad_right_rmr

    Collapse

    News

    Collapse

    Topics Statistics Last Post
    Started by seqadmin, 03-20-2025, 05:03 AM
    0 responses
    41 views
    0 reactions
    Last Post seqadmin  
    Started by seqadmin, 03-19-2025, 07:27 AM
    0 responses
    47 views
    0 reactions
    Last Post seqadmin  
    Started by seqadmin, 03-18-2025, 12:50 PM
    0 responses
    36 views
    0 reactions
    Last Post seqadmin  
    Started by seqadmin, 03-03-2025, 01:15 PM
    0 responses
    191 views
    0 reactions
    Last Post seqadmin  
    Working...