Changes between Version 10 and Version 11 of DataConcordance


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Timestamp:
Apr 21, 2011 4:32:58 PM (14 years ago)
Author:
laurent
Comment:

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  • DataConcordance

    v10 v11  
    101101The graph below shows a preliminary analysis of the "types" of discordance observed. An important caveat has to be taken into account: VCFTools only reports sites where the alleles perfectly match. This means that all monomorphic sites in one dataset that are polymorphic in the other will not appear. This was especially problematic since we compared each sequenced sample separately against the whole Immunochip dataset. As a result almost all homozygous reference sites in the sequence data were not reported by VCFTools. All the discordant sites that did not have perfectly matching alleles are reported below as 'unknown' as it has yet to be investigated what discordance "type" they belong to.
    102102
    103 [[Image(pilot.immuno.seq.gen.concordance.test.jpg)]
     103[[Image(pilot.immuno.seq.gen.concordance.test.jpg)]]
    104104
    105105== BGI / Immunochip ==