Fstat: Computes F statistics on a population genetics dataset given...
In Geneland: Detection of Structure from Multilocus Genetic Data
Description
Usage
Arguments
Value
Author(s)
References
Description
Computes F statistics according to Weir and Cockerham's
estimators.
Missing values are allowed and accounting for in the computation of
Fst.
The presence of missing values involves a downward bias in the
computation of Fis.
This function should not be used on haploid data.
Usage
1
Arguments
genotypes
Diploid codominant genotype data. A matrix with one line per
individual and 2 columns per locus
npop
total number of popluation present in the dataset
pop.mbrship
Vector of integers giving the population membership
for each individual
ploidy
Integer: 1 or 2 (default is 2) under development. Do
not use for haploid data.
Value
A list with components
Fis
A vector of estimations of within-population Fis
Fst
A matrix of estimations the pairwise population
Fst. (Only the upper triangular part is returned).
Author(s)
Arnaud Estoup for original code in Turbo Pascal.
Translation in Fortran and interface with R by Gilles Guillot
References
Weir, B.S. and C.C. Cockerham,
Estimating F-statistics for the analysis of population structure,
Evolution, 1984,
vol. 38, 1358-1370.
Geneland documentation built on April 14, 2017, 2:31 p.m.
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Description Usage Arguments Value Author(s) References
Description
Computes F statistics according to Weir and Cockerham's estimators. Missing values are allowed and accounting for in the computation of Fst. The presence of missing values involves a downward bias in the computation of Fis. This function should not be used on haploid data.
Usage
1 |
Arguments
genotypes |
Diploid codominant genotype data. A matrix with one line per individual and 2 columns per locus |
npop |
total number of popluation present in the dataset |
pop.mbrship |
Vector of integers giving the population membership for each individual |
ploidy |
Integer: 1 or 2 (default is 2) under development. Do not use for haploid data. |
Value
A list with components
Fis |
A vector of estimations of within-population Fis |
Fst |
A matrix of estimations the pairwise population Fst. (Only the upper triangular part is returned). |
Author(s)
Arnaud Estoup for original code in Turbo Pascal. Translation in Fortran and interface with R by Gilles Guillot
References
Weir, B.S. and C.C. Cockerham, Estimating F-statistics for the analysis of population structure, Evolution, 1984, vol. 38, 1358-1370.
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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