As you recommended doing sensitivity and PPV evaluation using truth data in the seminar, what truth data do you recommend using for that purpose??Answered
a)How do I (......)?
We typically used pooled Hapmap samples. We pool them in equal fractions of 5, 10 and 20 samples. This gives us a distribution of truth variants as low as 2.5% allele fraction.
I would also encourage you to take a look at:
This describes. LinSeq, which is one of the ways we use to construct somatic truth data.
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