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profile based Illumina pair-end Reads Simulator pIRS

Provides an effective Illumina reads simulator using empirical profiles. pIRS was developed to reproduce reads that are more like real Illumina data. This method can helpful for development of Next-Generation Sequencing (NGS) software such as de novo assembly, single-nucleotide polymorphism (SNP) calling and structural variation detection. This application can be useful for applications that need heterozygous data.

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pIRS classification

pIRS specifications

Software type:
Application/Script, Package/Module
Restrictions to use:
Operating system:
BSD 2-clause “Simplified” License, GNU General Public License version 2.0
Command line interface
Biological technology:
Programming languages:
C++, Perl
Computer skills:

pIRS distribution


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pIRS support



  • Wei Fan <>


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BGI-Shenzhen, Shenzhen, China; Biodynamic Optical Imaging Center, Peking University, Beijing, China; Medical Population Genetics Program, Broad Institute, Cambridge, MA, USA

Funding source(s)

Supported by Basic Research Program of Shenzhen City (grants JC2010526019); Key Laboratory Project of Shenzhen City (grants CXB200903110066A and CXB201108250096A); Shenzhen Key Laboratory of Gene Bank for National Life Science.

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