Comments (2)
tobiasrausch
commented on August 24, 2024
The main reason to merge and re-genotype is to get accurate genotypes across the same loci in all samples. This is very powerful for filtering germline SVs and remove redundant SV calls, especially if you have several dozens or hundreds of samples. ./. means that the data is insufficient to make a confident genotype call whereas 0/0 means the data supports hom. reference.
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tobiasrausch
commented on August 24, 2024
By the way, there is a user group that has more information on these usage questions.
https://groups.google.com/forum/#!forum/delly-users
You are, of course, welcome to join that group if you have further questions.
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