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
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 ..View full abstract
Awarded by National Health and Medical Research Council
The research is supported by funding from the National Health and Medical Research Council (APP1052303).