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minimac

Description

minimac website

Minimac is a low memory, computationally efficient implementation of the MaCH algorithm for genotype imputation. It is designed to work on phased genotypes and can handle very large reference panels with hundreds or thousands of haplotypes. The name has two parts. The first, "mini", refers to the modest amount of computational resources it requires. The second, "mac", is short hand for MaCH, our widely used algorithm for genotype imputation.

Environment Modules

Run module spider minimac to find out what environment modules are available for this application.

Environment Variables

  • HPC_MINIMAC_DIR - installation directory
  • HPC_MINIMAC_BIN - executable directory

Citation

If you publish research that uses minimac you have to cite it as follows:

Fuchsberger, C., Abecasis, G. R., & Hinds, D. A. (2015). minimac2: Faster genotype imputation. Bioinformatics, 31(5), 782–784. https://doi.org/10.1093/bioinformatics/btu704

Howie, B., Fuchsberger, C., Stephens, M., Marchini, J., & Abecasis, G. R. (2012). Fast and accurate genotype imputation in genome-wide association studies through pre-phasing. Nature Genetics, 44(8), 955–959. https://doi.org/10.1038/ng.2354

Categories

biology, genomics