Difference between revisions of "ADMIXTURE"
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Revision as of 17:40, 25 June 2015
Description
ADMIXTURE is a software tool for maximum likelihood estimation of individual ancestries from multilocus SNP genotype datasets. It uses the same statistical model as STRUCTURE but calculates estimates much more rapidly using a fast numerical optimization algorithm.
Specifically, ADMIXTURE uses a block relaxation approach to alternately update allele frequency and ancestry fraction parameters. Each block update is handled by solving a large number of independent convex optimization problems, which are tackled using a fast sequential quadratic programming algorithm. Convergence of the algorithm is accelerated using a novel quasi-Newton acceleration method. The algorithm outperforms EM algorithms and MCMC sampling methods by a wide margin.
Required Modules
Serial
- ADMIXTURE
Parallel (OpenMP)
- intel
- ADMIXTURE
Parallel (MPI)
- intel
- openmpi
- ADMIXTURE
System Variables
- HPC_{{#uppercase:ADMIXTURE}}_DIR - installation directory
Citation
If you publish research that uses ADMIXTURE you have to cite it as follows: