hwde: Models and Tests for Departure from Hardy-Weinberg Equilibrium and Independence Between Loci

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Fits models for genotypic disequilibria, as described in Huttley and Wilson (2000), Weir (1996) and Weir and Wilson (1986). Contrast terms are available that account for first order interactions between loci. Also implements, for a single locus in a single population, a conditional exact test for Hardy-Weinberg equilibrium.

Author
John Maindonald, with \code{hwexact()} from Randall Johnson.
Date of publication
2016-01-01 20:58:16
Maintainer
John Maindonald <John.Maindonald@anu.edu.au>
License
GPL (>= 2)
Version
0.67
URLs

View on CRAN

Man pages

decode.genotypes
Creates contrasts that relate to a single locus
hwde
Fit relevant models, and test for various types of departure...
hwexact
Exact test of HWE
IndianIrish
Observed genotype frequencies at MN and S loci, for 2...
make.contrasts
Calculate contrasts required by the function
MendelABC
Mendel's F2 trifactorial data for seed shape (A: round or...

Files in this package

hwde
hwde/COPYING
hwde/inst
hwde/inst/doc
hwde/inst/doc/hwde.R
hwde/inst/doc/IndianIrish.txt
hwde/inst/doc/hwde.Rnw
hwde/inst/doc/hw.txt
hwde/inst/doc/hwde.pdf
hwde/NAMESPACE
hwde/NEWS
hwde/data
hwde/data/mendelABC.RData
hwde/data/IndianIrish.RData
hwde/R
hwde/R/decode.genotypes.R
hwde/R/hwexact.R
hwde/R/hwde.R
hwde/R/make.contrasts.R
hwde/R/snphwe.R
hwde/vignettes
hwde/vignettes/hwde.Rnw
hwde/MD5
hwde/build
hwde/build/vignette.rds
hwde/DESCRIPTION
hwde/man
hwde/man/hwde.Rd
hwde/man/make.contrasts.Rd
hwde/man/hwexact.Rd
hwde/man/decode.genotypes.Rd
hwde/man/MendelABC.Rd
hwde/man/IndianIrish.Rd