baseCalling_Matrix_analyzer
Profile based Illumina pair-end Reads Simulator
Install
- All systems
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curl cmd.cat/baseCalling_Matrix_analyzer.sh
- Debian
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apt-get install pirs - Ubuntu
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apt-get install pirs - Kali Linux
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apt-get install pirs - Windows (WSL2)
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sudo apt-get updatesudo apt-get install pirs - Raspbian
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apt-get install pirs - Dockerfile
- dockerfile.run/baseCalling_Matrix_analyzer
pirs
Profile based Illumina pair-end Reads Simulator
The program pIRS can be used for simulating Illumina PE reads, with a series of characters generated by Illumina sequencing platform, such as insert size distribution, sequencing error(substitution, insertion, deletion), quality score and GC content-coverage bias. The insert size follows a normal distribution, so users should set the mean value and standard deviation. Usually the standard deviation is set as 1/20 of the mean value. The normal distribution by Box-Muller method is simulated. The program simulates sequencing error, quality score and GC content- coverage bias according to the empirical distribution profile. Some default profiles counted from lots of real sequencing data are provided. To simulate reads from diploid genome, users should simulate the diploid genome sequence firstly by setting the ratio of heterozygosis SNP, heterozygosis InDel and structure variation.