title: Mendel-GPU: haplotyping and genotype imputation on graphics processing units.
abstract: BACKGROUND
  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.
  
  
  BACKGROUND
  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/.
  
  
  BACKGROUND
  gary.k.chen@usc.edu.
  
  
  BACKGROUND
  Supplementary data are available at Bioinformatics online.
authors.affiliation: Department of Preventive Medicine, USC, Los Angeles, CA 90089, USA. gary.k.chen@usc.edu
authors.forename: Gary K
authors.initials: GK
authors.lastname: Chen
authors.forename: Kai
authors.initials: K
authors.lastname: Wang
authors.forename: Alex H
authors.initials: AH
authors.lastname: Stram
authors.forename: Eric M
authors.initials: EM
authors.lastname: Sobel
authors.forename: Kenneth
authors.initials: K
authors.lastname: Lange
mesh_terms: D000465:Algorithms; D015894:Genome, Human; D055106:Genome-Wide Association Study; D005838:Genotype; D006239:Haplotypes; D059014:High-Throughput Nucleotide Sequencing; D006801:Humans; D020641:Polymorphism, Single Nucleotide; D017422:Sequence Analysis, DNA; D012984:Software