Comments (2)
Yes, if you have a set of candidate inversions, BayesTyper should be able to genotype those.
from bayestyper.
Hi,
I have another question. I want to genotype population on custom VCF file.
As for the insertion or deletion, it is easy to generate the VCF. A deletion is as an example.
#CHROM POS ID REF ALT QUAL FILTER INFO
chr4 106924192 . TGCCCAGGAAATTGAAG T . . .
it means a deletion occur in query.
However, what about the inversion. For example, there is a inversion between ref and query.
ref, start - end (10 -20) VS. query, start - end (20 - 30). Which is the correct format as follows:
(1)
#CHROM POS ID REF ALT QUAL FILTER INFO
chr4 10 . AAGGCCTTCC AAGGCCTTCC . . .
or (2)
#CHROM POS ID REF ALT QUAL FILTER INFO
chr4 10 . AAGGCCTTCC CCTTCCGGAA . . .
Thx
from bayestyper.
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from bayestyper.