Journal article

Simulating the dynamics of targeted capture sequencing with CapSim

Duc Cao Minh, Devika Ganesamoorthy, Chenxi Zhou, Lachlan JM Coin

BIOINFORMATICS | OXFORD UNIV PRESS | Published : 2018

Abstract

Motivation: Targeted sequencing using capture probes has become increasingly popular in clinical applications due to its scalability and cost-effectiveness. The approach also allows for higher sequencing coverage of the targeted regions resulting in better analysis statistical power. However, because of the dynamics of the hybridization process, it is difficult to evaluate the efficiency of the probe design prior to the experiments which are time consuming and costly. Results: We developed CapSim, a software package for simulation of targeted sequencing. Given a genome sequence and a set of probes, CapSim simulates the fragmentation, the dynamics of probe hybridization and the sequencing of ..

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University of Melbourne Researchers