Fast and flexible simulation of DNA sequence data
Top Cited Papers
- 24 November 2008
- journal article
- research article
- Published by Cold Spring Harbor Laboratory in Genome Research
- Vol. 19 (1) , 136-142
- https://doi.org/10.1101/gr.083634.108
Abstract
Simulation of genomic sequences under the coalescent with recombination has conventionally been impractical for regions beyond tens of megabases. This work presents an algorithm, implemented as the program MaCS (Markovian Coalescent Simulator), that can efficiently simulate haplotypes under any arbitrary model of population history. We present several metrics comparing the performance of MaCS with other available simulation programs. Practical usage of MaCS is demonstrated through a comparison of measures of linkage disequilibrium between generated program output and real genotype data from populations considered to be structured.Keywords
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