Basic Package Attributes
Title QMSim
Short Description QTL and Marker Simulator
Long Description Linkage disequilibrium (LD) and linkage analyses have been used extensively to identify quantitative trait loci (QTL) in human and livestock. Owing to the recent developments in genotyping technologies, dense marker maps are now available for several livestock species. Even though genotyping costs have substantially declined, large scale genome-wide association studies are still costly. For this reason many studies in livestock suffer from small sample size or from low density of markers. However, simulation is a highly valuable tool for assessing and validating new proposed methods for association studies at very low cost. During the last few decades, simulation has played a major role in answering a wide variety of questions in genomics. Several software have been developed for simulating genomes especially in human research. However most of the developed software tools do not provide functionality required for many of the applications in livestock. QMSim was developed to simulate large scale genomic data in livestock populations. QMSim is a family based simulator, which can also take into account predefined evolutionary features, such as LD, mutation, bottlenecks and expansions. The simulation is basically carried out in two steps: In the first step, a historical population is simulated to establish mutation-drift equilibrium and, in the second step, recent population structures are generated, which can be complex. QMSim allows for a wide range of parameters to be incorporated in the simulation models in order to produce appropriate simulated data.
Version 1.1.0
Project Started 2009
Last Release 5 years, 7 months ago
Citations Sargolzaei M, Schenkel FS, QMSim: a large-scale genome simulator for livestock., Bioinformatics, March 1, 2009 [Abstract, cited in PMC ]
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