RT Journal
A1 Ji, Shuangxi
A1 Wang, Wenyi
A1 Zhu, Tong
A1 Sethia, Ankit
T1 Accelerated somatic mutation calling for whole-genome and whole-exome sequencing data from heterogenous tumor samples
JF Genome Research 
JO Genome Research 
YR 2024 
FD April 08 
DO 10.1101/gr.278456.123 
SP gr.278456.123 
UL http://genome.cshlp.org/content/early/2024/04/05/gr.278456.123.abstract 
AB Accurate detection of somatic mutations in DNA sequencing data is a fundamental prerequisite for cancer research. Previous analytical challenge was overcome by consensus mutation calling from four to five popular callers. This, however, increases the already nontrivial computing time from individual callers. Here, we launch MuSE 2, powered by multi-step parallelization and efficient memory allocation, to resolve the computing time bottleneck. MuSE 2 speeds up 50 times than MuSE 1 and 8-80 times than other popular callers. Our benchmark study suggests combining MuSE 2 and the recently accelerated Strelka2 achieves high efficiency and accuracy in analyzing large cancer genomic datasets.