HAplotype inference using Reference and Sequencing tecHnology (HARSH) is a method to infer the haplotype using haplotype reference panel and high throughput sequencing data. It is based on a novel probabilistic model and Gibbs sampler method.

HARSH was created by Wen-Yun Yang, Farhad Hormozdiari, Zhanyong Wang, Dan He, Bogdan Pasaniuc and Eleazar Eskin.

beta 2 version is posted!!!


  • (2013-11-8) version 0.21, An IO bug fixed.

  • (2013-10-28) Software beta 2 version posted online! bug fixed and new features included

  • (2013-08-31) Software beta version posted online

  • (2013-06-28) Paper was accepted by Bioinformatics Journal !

  • (2013-06-19) Breif online manual is released for software functionality preview

  • (2013-01-09) Preliminary version for HARSH was ready, will be released after publication

  • (2013-01-07) Paper was submitted !


Wen-Yun Yang, Farhad Hormozdiari, Zhanyong Wang, Dan He, Bogdan Pasaniuc, Eleazar Eskin. Leveraging Reads that Span Multiple Single Nucleotide Polymorphisms for Haplotype Inference from Sequencing Data. Bioinformatics, 29(18), 2245-2252, September 2013 Read more.


For general questions, comments or suggestions about HARSH, please email Bogdan Panasiuc or Eleazar Eskin.

For specific questions or bug report about HARSH software, please email Wen-Yun Yang (wenyun (AT) ucla.edu).


W.Y., F.H., Z,W., and E.E. are supported by National Science Foundation grants 0513612, 0731455, 0729049, 0916676, 1065276, and 1320589, and National Institutes of Health grants K25-HL080079, U01-DA024417, P01-HL30568 and PO1- HL28481. B.P. is supported by National Institutes of Health grants 1R03CA162200 and 5R01GM053275. We acknowledge the support of the NINDS Informatics Center for Neurogenetics and Neurogenomics (P30 NS062691).