pirs
Profile based Illumina pair-end Reads Simulator
Command lineScience
Not tested on a device yet. What that means
Commands in the package
pirsalignment_statorbaseCalling_Matrix_analyzerbaseCalling_Matrix_calculatorbaseCalling_Matrix_calculator.0baseCalling_Matrix_mergerbaseCalling_Matrix_merger.oldgc_coverage_biasgc_coverage_bias_plotgethistifollowQifollowQmergeifollowQplotifqQindelstat_sam_bamitilestatorloesspifollowQmerge
About pirs
From Debian's package description
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.
From Debian's description of the pirs package, under that package's license.
Dependencies
Depends on
libc6libgcc-s1libgomp1libgzstream0libstdc++6zlib1gpirs-profilesfonts-liberationgnuplot-qtorgnuplot
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Sources and licenses
- Name: the Debian package name.
- Summary: Debian's short description of the pirs package, under that package's license.
- Description: Debian's description of the pirs package, under that package's license.
- Versions and sizes: Debian's archive for ARM64, as on packages.debian.org.
- Popularity: Debian Popularity Contest counts.
More in About the catalog.