HIest: Hybrid index estimation

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Uses likelihood to estimate ancestry and heterozygosity. Evaluates simple hybrid classifications (parentals, F1, F2, backcrosses). Estimates genomic clines.

Author
Ben Fitzpatrick
Date of publication
2013-02-16 11:33:02
Maintainer
Ben Fitzpatrick <benfitz@utk.edu>
License
GPL (>= 3)
Version
2.0

View on CRAN

Man pages

Bluestone
Original marker data for hybrid tiger salamander larvae...
Cline.fit
Fit alternative cline functions to data from one or more...
Cline.plot
Graph genomic clines fit to data
gcline.fn
Fit a genomic cline using maximum likelihood
HIC
Closed form maximum-likelihood estimates of ancestry and...
HIC3
Closed form maximum-likelihood estimates of ancestry and...
HIclass
Calculate likelihoods for early generation hybrid genotype...
HIest
Find the joint maximum likelihood estimates of ancestry and...
HIest-package
Functions for estimating hybrid indices (ancestry and...
HILL
Hybrid Index Log Likelihood
HIsurf
Describe the joint likelihood surface of ancestry and...
HItest
Compare the likelihood of hybrid classification to MLE...
HItest3
Compare the likelihood of hybrid classification to MLE...
longX2
Longs heterogeneity test for admixture proportions in a...
spatial.AD
Simulate admixture in continuous, 2-dimensional space
spatial.HZ
Simulate a hybrid zone in continuous, 2-dimensional space
thirdclass
Calculate likelihoods for early generation hybrid genotype...
threeway
Find joint maximum-likelihood estimates of ancestry and...

Files in this package

HIest
HIest/MD5
HIest/R
HIest/R/threeway.R
HIest/R/thirdclass.R
HIest/R/spatial.HZ.R
HIest/R/spatial.AD.R
HIest/R/LongX2.R
HIest/R/HItest3.R
HIest/R/HItest.R
HIest/R/HIsurf.R
HIest/R/HILL.R
HIest/R/HIest.R
HIest/R/HIclass.R
HIest/R/HIC3.R
HIest/R/HIC.R
HIest/R/gcline.fn.R
HIest/R/Cline.plot.R
HIest/R/Cline.fit.R
HIest/NAMESPACE
HIest/man
HIest/man/threeway.Rd
HIest/man/thirdclass.Rd
HIest/man/spatial.HZ.Rd
HIest/man/spatial.AD.Rd
HIest/man/longX2.Rd
HIest/man/HItest3.Rd
HIest/man/HItest.Rd
HIest/man/HIsurf.Rd
HIest/man/HILL.Rd
HIest/man/HIest.Rd
HIest/man/HIest-package.Rd
HIest/man/HIclass.Rd
HIest/man/HIC3.Rd
HIest/man/HIC.Rd
HIest/man/gcline.fn.Rd
HIest/man/Cline.plot.Rd
HIest/man/Cline.fit.Rd
HIest/man/Bluestone.Rd
HIest/DESCRIPTION
HIest/data
HIest/data/Bluestone.rda