mendel-gpu

MOTIVATION: In modern sequencing studies, one can improve the confidence of
genotype calls by phasing haplotypes using information from an external reference
panel of fully typed unrelated individuals. However, the computational demands
are so high that they prohibit researchers with limited computational resources
from haplotyping large-scale sequence data. RESULTS: Our graphics processing unit
based software delivers haplotyping and imputation accuracies comparable to
competing programs at a fraction of the computational cost and peak memory
demand. AVAILABILITY: Mendel-GPU, our OpenCL software, runs on Linux platforms
and is portable across AMD and nVidia GPUs. Users can download both code and
documentation at http://code.google.com/p/mendel-gpu/. CONTACT:
gary.k.chen@usc.edu. SUPPLEMENTARY INFORMATION: Supplementary data are available
at Bioinformatics online.

Mendel-GPU: haplotyping and genotype imputation on graphics processing units.

A tool for genotype imputation. The mendel-gpu algorithm uses linkage disequilibrium patterns in unrelated subjects and runs in AMD and Nvidia GPUs.

mendel-gpu

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