MaCS

MaCS (Markovian Coalescent Simulator) is a software tool that enables efficient simulation of haplotypes under any arbitrary model of population history, making it an invaluable resource for researchers in the field of genomics. Conventionally, simulation of genomic sequences under the coalescent with recombination has been impractical for regions beyond tens of megabases. However, MaCS presents a novel algorithm that overcomes this limitation, allowing for the simulation of genomic sequences beyond this threshold.

In a study comparing the performance of MaCS with other available simulation programs, it was shown to outperform them in several metrics. This is a testament to the effectiveness of MaCS as a simulation tool in generating program output for comparison with real genotype data from structured populations. Demonstrating the practical usage of MaCS, it was used to compare measures of linkage disequilibrium between generated program output and real genotype data from populations considered to be structured.

Topic

DNA;DNA;Bioinformatics;Experimental design and studies

Detail

  • Operation: Operation

  • Software interface: Command-line user interface

  • Language: C++

  • License: BSD-3-Clause

  • Cost: -

  • Version name: -

  • Credit: -

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  • Output: -

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Publications

  • Fast and flexible simulation of DNA sequence data.
  • Chen GK, et al. Fast and flexible simulation of DNA sequence data. Fast and flexible simulation of DNA sequence data. 2009; 19:136-42. doi: 10.1101/gr.083634.108
  • https://doi.org/10.1101/gr.083634.108
  • PMID: 19029539
  • PMC: PMC2612967

Download and documentation

    Currently not available or not maintained.

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