AlphaMPSim

AlphaMPSim is a simulation tool designed to compare the genetic architectures of traits in populations with varying crossing designs and biallelic markers. It allows for the efficient simulation of multi-parent designs using diverse founder haplotypes and full tracking of identity by descent status of alleles within the pedigree. The output files are compatible with commonly available analysis packages in R, and executable versions of the tool are available for Mac and Linux on the website of the John Hickey lab.

Topic

Genetics;Population genomics;Computational biology

Detail

  • Operation: Modelling and simulation

  • Software interface: Command-line user interface

  • Language: Shell;R

  • License: -

  • Cost: Free

  • Version name: -

  • Credit: Australian Research Council, CGIAR Generation Challenge Program, ICRISAT, the Seeds of Discovery and CIMMYT.

  • Input: -

  • Output: -

  • Contact: jmwhickey@hotmail.com

  • Collection: -

  • Maturity: -

Publications

  • AlphaMPSim: flexible simulation of multi-parent crosses.
  • Hickey JM, et al. AlphaMPSim: flexible simulation of multi-parent crosses. AlphaMPSim: flexible simulation of multi-parent crosses. 2014; 30:2686-8. doi: 10.1093/bioinformatics/btu206
  • https://doi.org/10.1093/bioinformatics/btu206
  • PMID: 24872425
  • PMC: -

Download and documentation

    Currently not available or not maintained.

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