GHap

GHap is an R tool to identify haplotypes and haplotype alleles in phased marker data. The GHap algorithm includes functions for supervised and unsupervised detection of ancestry tracks, analyses of unphased data, virtual gamete mating, GWAS, and mixed model fitting.

Topic

Genetics;Sequence analysis;Nucleic acids

Detail

  • Operation: Linkage analysis

  • Software interface: Library

  • Language: R

  • License: GNU General Public License >= v2

  • Cost: Free

  • Version name: 3.0.0

  • Credit: São Paulo Research Foundation, The National Council for Scientific and Technological Development.

  • Input: -

  • Output: -

  • Contact: Yuri T. Utsunomiya ytutsunomiya@gmail.com

  • Collection: -

  • Maturity: Stable

Publications

  • GHap: an R package for genome-wide haplotyping.
  • Utsunomiya YT, Milanesi M, Utsunomiya AT, Ajmone-Marsan P, Garcia JF. GHap: an R package for genome-wide haplotyping. Bioinformatics. 2016 Sep 15;32(18):2861-2. doi: 10.1093/bioinformatics/btw356. Epub 2016 Jun 9. PMID: 27283951.
  • https://doi.org/10.1093/bioinformatics/btw356
  • PMID: 27283951
  • PMC: -
  • Unsupervised detection of ancestry tracks with the GHap rpackage
  • Kaushik A, et al. miRMOD: a tool for identification and analysis of 5' and 3' miRNA modifications in Next Generation Sequencing small RNA data. miRMOD: a tool for identification and analysis of 5' and 3' miRNA modifications in Next Generation Sequencing small RNA data. 2015; 3:e1332. doi: 10.7717/peerj.1332
  • https://doi.org/10.1111/2041-210X.13467
  • PMID: -
  • PMC: -

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