DeNovoGear
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Calling denovo mutations in trios - Autosomes
Calling denovo mutations in trios - X chromosome
Calling denovo mutations in paired samples
Phasing denovo mutations
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Denovo calls in trios for the autosomes and X chromosome
Paired sample analysis
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Calling denovo mutations in trios in the X chromosome
Male offspring
./denovogear dnm XS --ped paired.ped --bcf sample.bcf
Female offspring
./denovogear dnm XD --ped paired.ped --bcf sample.bcf