Somatic variant analysis of linked-reads sequencing data with Lancet

BioRxiv : the Preprint Server for Biology
Rajeeva MusunuriGiuseppe Narzisi

Abstract

Summary: We present a new version of the popular somatic variant caller, Lancet, that supports the analysis of linked-reads sequencing data. By seamlessly integrating barcodes and haplotype read assignments within the colored De Bruijn graph local-assembly framework, Lancet computes a barcode-aware coverage and identifies variants that disagree with the local haplotype structure. Availability and Implementation: Lancet is implemented in C++ and is available for academic and non-commercial research purposes as an open-source package at https://github.com/nygenome/lancet.

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