16GT: a fast and sensitive variant caller using a 16-genotype probabilistic model

Summary16GT is a variant caller for Illumina WGS and WES germline data. It uses a new 16-genotype probabilistic model to unify SNP and indel calling in a single variant calling algorithm. In benchmark comparisons with five other widely used variant callers on a modern 36-core server, 16GT ran faster and demonstrated improved sensitivity in calling SNPs, and it provided comparable sensitivity and accuracy in calling indels as compared to the GATK HaplotypeCaller.\n\nAvailability and implementationhttps://github.com/aquaskyline/16GT\n\nContactrluo5@jhu.edu\n\nSupplementary informationSupplementary tables and notes are available at Bioinformatics online.