Roel G.W. Verhaak

AmpliconSuite: an end-to-end workflow for analyzing focal amplifications in cancer genomes

Abstract Here we present AmpliconSuite, a toolkit for focal amplification analysis from cancer whole-genome sequencing that identifies extrachromosomal DNA (ecDNA), breakage–fusion–bridges and other amplification modes. Its ecContext module categorizes ecDNA structures to underst...