RT Journal Article
SR Electronic
T1 Calling Somatic SNVs and Indels with Mutect2
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 861054
DO 10.1101/861054
A1 Benjamin, David
A1 Sato, Takuto
A1 Cibulskis, Kristian
A1 Getz, Gad
A1 Stewart, Chip
A1 Lichtenstein, Lee
YR 2019
UL http://biorxiv.org/content/early/2019/12/02/861054.abstract
AB Mutect2 is a somatic variant caller that uses local assembly and realignment to detect SNVs and indels. Assembly implies whole haplotypes and read pairs, rather than single bases, as the atomic units of biological variation and sequencing evidence, improving variant calling. Beyond local assembly and alignment, Mutect2 is based on several probabilistic models for genotyping and filtering that work well with and without a matched normal sample and for all sequencing depths.