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introgress (version 1.2.3)

methods for analyzing introgression between divergent lineages

Description

introgress provides functions for analyzing introgression of genotypes between divergent, hybridizing lineages, including estimating genomic clines from multi-locus genotype data and testing for deviations from neutral expectations. Functions are also provided for maximum likelihood estimation of molecular hybrid index and graphical analysis.

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Version

Install

install.packages('introgress')

Monthly Downloads

19

Version

1.2.3

License

GPL (>= 2)

Maintainer

C Alex Buerkle

Last Published

October 29th, 2012

Functions in introgress (1.2.3)

compare.clines

Compare Clines
AdmixDataSim1

Admixed Population Genotype Data from Simulation 1
like.h

Likelihood Hybrid Index
LociD

Dominant Marker Information for Simulation 1
s.wrapper

Sign Wrapper
prepare.data

Prepare Data
test.combinations

Test Combinations
calc.intersp.het

Calculate Interspecific Heterozygosity
LociDataSim2

Marker Information for Simulation 2
introgress-package

introgress
p1DataSim2

Parental Population 1 Dominant Genotype Data from Simulation 2
h.func

Hybrid Index Function
LociDataSim1

Marker Information for Simulation 1
composite.clines

Composite Clines Plot
AdmixDom

Admixed Population Dominant Genotype Data from Simulation 1
test.data.objects

Test Data Objects
support.limit

Support Limit
fixup.combos.touse

Fix Combos To Use
AdmixDataSim2

Admixed Population Genotype Data from Simulation 2
fit.c.clines

Fit Co-dominant Clines
est.h

Estimate Hybrid Index
clines.plot

Clines Plot
per.locus.like

Per Locus Likelihood
test.genotypes

Test Genotypes
p1D

Parental Population 1 Dominant Genotype Data from Simulation 1
p2DataSim2

Parental Population 2 Genotype Data from Simulation 2
genomic.clines

Genomic Clines
fit.invariant.clines

Fit Invariant Clines
p2D

Parental Population 2 Dominant Genotype Data from Simulation 1
triangle.plot

Triangle Plot
mk.image

Make Image
delta

Delta