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Thread: GenotypeHarmonizer

  1. #1
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    GenotypeHarmonizer

    Short question. I tried today to realize genotype alignments (to 1kG, Build37) with the program called GenotypeHarmonizer. I expected some trouble and problems and did not encounter anything like that, which is surprising. On the other hand, this program is a bit particular, as it uses Linkage disequilibrium patterns to determine the correct strand of GC and AT SNPs. My question: is there someone around here who is familiar with this soft, and if yes is he/she able to tell if it is trustworthy? Just because it's too beautiful to be true...
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    Quote Originally Posted by anglesqueville View Post
    Short question. I tried today to realize genotype alignments (to 1kG, Build37) with the program called GenotypeHarmonizer. I expected some trouble and problems and did not encounter anything like that, which is surprising. On the other hand, this program is a bit particular, as it uses Linkage disequilibrium patterns to determine the correct strand of GC and AT SNPs. My question: is there someone around here who is familiar with this soft, and if yes is he/she able to tell if it is trustworthy? Just because it's too beautiful to be true...
    I am familiar with this software, have been using it for a couple years as an initial step before phasing/imputing genomes.

  3. The Following User Says Thank You to Vadim Verenich For This Useful Post:

     anglesqueville (12-05-2018)

  4. #3
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    Quote Originally Posted by Vadim Verenich View Post
    I am familiar with this software, have been using it for a couple years as an initial step before phasing/imputing genomes.
    Thanks, Vadim, it's reassuring. I was a bit troubled by the fact that seemingly its use is not very current.
    En North alom, de North venom
    En North fum naiz, en North manom

    (Roman de Rou, Wace, 1160-1170)

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