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@joanneberghout I think it's pretty ambiguous. With enough replicates you can ID markers that fail (like paper below), but whether that's an InDel vs a SNP isn't clear. https://t.co/joWYEIFLHr
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#bmcgenomics Discovery of novel variants in genotyping arrays improves genotype retention & reduces ascertainment bias http://t.co/VIoAShuj
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Discovery of novel variants in genotyping arrays improves genotype retention and reduces ascertainment bias. http://t.co/v36GIHGc #GWAS