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SInC: An accurate and fast error-model based simulator for SNPs, Indels and CNVs coupled with a read generator for short-read sequence data

Authors
  • Pattnaik, Swetansu
  • Gupta, Saurabh
  • Rao, Arjun A
  • Panda, Binay
Type
Preprint
Publication Date
Aug 16, 2013
Submission Date
Jul 12, 2013
Identifiers
arXiv ID: 1307.3389
Source
arXiv
License
Unknown
External links

Abstract

We report SInC (SNV, Indel and CNV) simulator and read generator, an open-source tool capable of simulating biological variants taking into account a platform-specific error model. SInC is capable of simulating and generating single- and paired-end reads with user-defined insert size with high efficiency compared to the other existing tools. SInC, due to its multi-threaded capability during read generation, has a low time footprint. SInC is currently optimised to work in limited infrastructure setup and can efficiently exploit the commonly used quad-core desktop architecture to simulate short sequence reads with deep coverage for large genomes. Sinc can be downloaded from https://sourceforge.net/projects/sincsimulator/.

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