Lancet2
Somatic variant caller with localized micro-assembly
Joint Assembly
Lancet employs a unique strategy where data from the tumor and matched normal is jointly assembled into small-scale sequence graphs representing the local genome structures of the sample. This results in increased accuracy to identify mutations, especially indels, private to the tumor.
User Friendly
Standard Lancet variant calling only requires a tumor and normal sample along with an accompanying reference fasta and a designated path to output the vcf file to. Check out the command line section for different options to customize a run.
Accurate and Fast
With its localized assembly and construction of deBruijn graphs, Lancet is able to quickly and accurately detect variants in a tumor-normal pair while working efficiently to scale to as many CPU resources as available.
Funding
Informatics Technology for Cancer Research (ITCR) under the NCI U01 award 1U01CA253405-01A1.