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Old 04-18-2013, 12:32 PM   #1
Location: Cambridge

Join Date: Apr 2013
Posts: 32
Default CASIM: Variants Making use of array genotype data

If genotype data is available for the same individuals, at what stage would the data be most useful?

Should it be added at calling or VQSR (Variant Quality Score Recalibration) stage as a set of known variants with known genotypes?

Or rather use it afterwards to assess genotype concordance?
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