GVC

Abstract

Genome variant detection is a challenge task in cancer genome analysis due to the complexity of genome variants and many confounding factors including sequencing error, sample purity, chromosomal ploidy and tumor clonality. Current software for variant detection is very time-consuming and in the same time not accurate enough to satisfy the requirements of clinical applications in precision oncology. We developed an all-round ultra-fast Genomic Variant Caller (GVC), which can detect germline and somatic variants, including SNVs and Small INDELs from genome sequencing data with super high speed and accuracy.

    GVC Germline snp and indel performance

    GVC Somatic snv and indel performance

    Run time comparisons between GVC and widely used sotwares

    GVC performance on TCGA datasets

    Comparison of Mutationload deviation from MC3 consensus

    Methods

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File contains three columns, respectively is Chromesome,start,end. Using the TAB separated.
For example :
11208012251
21259512802
31316313658
101462015015
111579515914
M1674317098
X200772200986
Y150772150986
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