SNP-HWE – Routines for exact SNP tests of Hardy-Weinberg Equilibrium

SNP-HWE

:: DESCRIPTION

SNP-HWE (SNP tests of Hardy-Weinberg Equilibrium) is based on an efficient algorithm for enumerating the exact heterozygote probability distribution conditional on the number of minor alleles present in the sample. It adequately controls Type I error rates within large and small samples and is suitable for use in large-scale studies of SNP data. With appropriate citation, these routines are freely available for your use and can be incorporated into other programs.

::DEVELOPER

Abecasis Lab

:: SCREENSHOTS

Command Line

:: REQUIREMENTS

  • Windows / Mac /  Linux
  • C++ Complier

:: DOWNLOAD

SNP-HWE

:: MORE INFORMATION

Citation:

Wigginton JE, Cutler DJ and Abecasis GR
A Note on Exact Tests of Hardy-Weinberg Equilibrium.
Am J Hum Genet (2005) 76: 887-93

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hweStrata 1.0 – Exact Stratified Test for Hardy-Weinberg Equilibrium

hweStrata 1.0

:: DESCRIPTION

hweStrata calculates an exact stratified test for HWE (Hardy-Weinberg Equilibrium) for diallelic markers, such as single nucleotide polymorphisms (SNPs), and an exact test for homogeneity of Hardy Weinberg disequilibrium. In addition,exact tests for HWE are calculated for each stratum.

::DEVELOPER

Division of Biomedical Statistics and Informatics,  Mayo Clinic

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Windows / Linux / MacOS
  • C Compiler

:: DOWNLOAD

 hweStrata

:: MORE INFORMATION

Citation:

Schaid D, Batzler A, Jenkins G, Hildebrandt M (2006)
Exact Tests of Hardy Weinberg Equilibrium and Homogeneity of Disequilibrium Across Strata.
Am J Hum Genet 79(6):1071-80

LDtests 1.0 – Tests of Linkage Disequilibrium and Hardy-Weinberg Equilibrium

LDtests 1.0

:: DESCRIPTION

LDtests provides exact tests of Linkage Disequilibrium and Hardy-Weinberg Equilibrium

::DEVELOPER

Dr Alexandra M Lewin

:: SCREENSHOTS

N/A

:: REQUIREMENTS

:: DOWNLOAD

 LDtests

:: MORE INFORMATION

Citation

Kulinskaya, E. and Lewin, A. (2009)
Testing for linkage and Hardy-Weinberg disequilibrium.
Annals of Human Genetics, 73(2):253 – 262.