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Пакунок: pirs (2.0.2+dfsg-10)

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.

Інші пакунки пов'язані з pirs

  • depends
  • recommends
  • suggests
  • dep: fonts-liberation
    Fonts with the same metrics as Times, Arial and Courier
  • dep: gnuplot
    Command-line driven interactive plotting program.
    also a virtual package provided by gnuplot-nox, gnuplot-qt, gnuplot-x11
  • dep: libc6 (>= 2.34)
    GNU C Library: Shared libraries
    also a virtual package provided by libc6-udeb
  • dep: libgcc-s1 (>= 3.5)
    GCC support library
  • dep: libgomp1 (>= 4.9)
    GCC OpenMP (GOMP) support library
  • dep: libgzstream0 (>= 1.5+dfsg)
    provide functionality of zlib C-library in a C++ iostream
  • dep: libstdc++6 (>= 11)
    GNU Standard C++ Library v3
  • dep: pirs-profiles
    profile basd Illumina pair-end Reads Simulator (profile data)
  • dep: zlib1g (>= 1:1.2.0.2)
    compression library - runtime

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