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Repository cnvsim
Name: cnvsim
Owner: ahosny
Synopsis: Simulates CNVs in whole genome and targeted exome sequencing
In genomics, Copy Number Variations (CNVs) is a type of structural variation in a genome where sections of the genome are duplicated or deleted. The number of variations (duplications/deletions) varies between individuals in the human population.

The Copy Number Variation Simulator (CNV-Sim) is a simulation tool that extends the functionality of existing next-generation sequencing read simulators to introduce copy number variations in the generated reads. The resulting reads encompass amplifications as well as deletions according to a predefined list of variant regions.

CNV-Sim aids testing and benchmarking tools for copy number variation detection and analysis. The tool offers two types of simulation:

1. CNV simulation in whole genome. CNV-Sim utilizes the functionality of ART to introduce variations in the genome.
2. CNV simulation in targeted exome. CNV-Sim utilizes the functionality of Wessim to introduce variations in the targets.
Development repository: https://github.com/NabaviLab/CNV-Sim
Clone this repository: hg clone https://toolshed.g2.bx.psu.edu/repos/ahosny/cnvsim
Type: unrestricted
Revision: 18:eca72016b5b3
This revision can be installed: True
Times cloned / installed: 78

Contents of this repository

Name Description Version Minimum Galaxy Version
in NGS short reads 0.9.2 any

Categories
Variant Analysis - Tools for single nucleotide polymorphism data such as WGA