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hsphase specifications

Information


Unique identifier OMICS_13145
Name hsphase
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data Hsphase requires a map file (name, chromosome and map positions), a genotype data file (numerically coded as 0, 1, 2 for the three genotypes and 9 for missing data) and a pedigree file (individuals and paternal ancestor).
Input format SNP
Operating system Unix/Linux, Mac OS, Windows
Programming languages C++, R
License GNU General Public License version 3.0
Computer skills Advanced
Version 2.0.1
Stability Stable
Requirements
Snowfall, RcppArmadillo
Maintained Yes

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Documentation


Maintainer


  • person_outline Mohammad Ferdosi

Publications for hsphase

hsphase citation

call_split

Genome wide association study of body weight in Australian Merino sheep reveals an orthologous region on OAR6 to human and bovine genomic regions affecting height and weight

2015
PMCID: 4536601
PMID: 26272623
DOI: 10.1186/s12711-015-0142-4
call_split See protocol

[…] The hsphase algorithm [] was used to reconstruct haplotypes on OAR6. Since this algorithm relies on a minimum number of individuals in a half-sib family, we opted for a conservative approach and excluded […]


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hsphase institution(s)
The Centre for Genetic Analysis and Applications, School of Environmental and Rural Science, University of New England, Armidale, Australia; Hanwoo Experiment Station, National Institute of Animal Science, RDA, Pyeongchang, Korea
hsphase funding source(s)
This work was supported by a grant from the Next-Generation BioGreen 21 Program (No. PJ008196), Rural Development Administration, Republic of Korea and by an Australian Research Council Discovery Project DP130100542.

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