HaploRec

HaploRec is a software tool to reconstruct haplotypes in disease association studies with many subjects. The HaploRec algorithm utilizes locally conserved regularities in reconstruction to achieve the highest possible local coherence of the haplotypes.

Topic

Population genetics

Detail

  • Operation: Phasing

  • Software interface: Command-line user interface

  • Language: Java

  • License: Proprietary

  • Cost: Free for academic, non-commercial use.

  • Version name: 2.3

  • Credit: The Finnish Funding Agency for Technology and Innovation (Tekes), Alexander von Humboldt Foundation.

  • Input: -

  • Output: -

  • Contact: Lauri Eronen lauri.eronen@cs.helsinki.fi

  • Collection: -

  • Maturity: Mature

Publications

  • A Markov chain approach to reconstruction of long haplotypes
  • Eronen L, Geerts F, Toivonen H. A Markov chain approach to reconstruction of long haplotypes. Pac Symp Biocomput. 2004:104-15. doi: 10.1142/9789812704856_0011. PMID: 14992496.
  • https://doi.org/10.1142/9789812704856_0011
  • PMID: 14992496
  • PMC: -
  • HaploRec: efficient and accurate large-scale reconstruction of haplotypes.
  • Eronen L, Geerts F, Toivonen H. HaploRec: efficient and accurate large-scale reconstruction of haplotypes. BMC Bioinformatics. 2006 Dec 22;7:542. doi: 10.1186/1471-2105-7-542. PMID: 17187677; PMCID: PMC1766938.
  • https://doi.org/10.1186/1471-2105-7-542
  • PMID: 17187677
  • PMC: PMC1766938

Download and documentation

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