GSR: Simulator - SIMLD
|Short Description||Simulating Linkage Disequilibrium Structures in a Human Population for SNP Association Studies|
|Long Description||Existing simulation methods usually simulate linkage disequilibrium (LD) structures starting with an initial population that is randomly generated according to specified allele frequencies. These at random based methods might be unstable because the LD level of the initial population is generally extremely low. This study presents a new algorithm, SIMLD, to simulate genome populations with real LD structures. SIMLD begins from an initial population with possibly the highest LD level, and then the LD decays to fit the desired level through processes of mating and recombination over generations. SIMLD can produce case–control samples according to various disease models. Using empirical SNP marker information from three populations of HapMap data, we implement the proposed algorithm and demonstrate a set of experimental results.|
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|Author verification||The basic description provided was derived from a website or publications by the GSR team and has not yet been verified by the simulation author. To modify this entry or add more information, propose changes to this simulator.|
|Type of Simulated Data|
|Population Size Changes|
No example publication using SIMLD has been provided.
Please propose new citations if you are aware of publications that use this software.