fst.one.plink: Calculate pairwise fsts from a dataset in ped format
In spflanagan/gwscaR: Genome-wide Selection Components Analysis in R
Description
Usage
Arguments
Value
Description
Calculate pairwise fsts from a dataset in ped format
Usage
1
fst.one.plink(raw, group1, group2, cov.thresh = 0.2, loc_names = NULL)
Arguments
raw
A data.frame with data in ped format
group1
A list with the individuals in group 1
group2
A list with the individuals in group 2
cov.thresh
A threshold for the number of individuals in the populations (default is 0.2)
loc_names
Locus names to be included in the output (optional)
Value
fst.dat A data.frame with columns:
Locus Name = the locus name
Hs1 = expected heterozygosity in pop 1
Hs2 = expected heterozygosity in pop 2
Hs = expected heterozygosity within populations
Ht = expected heterozygosity among populations
Fst = Fst
NumAlleles = number of alleles at the locus
Num1 = the number of individuals in pop 1
Num2 = the number of individuals in pop 2
spflanagan/gwscaR documentation built on Nov. 14, 2019, 9:16 p.m.
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Description Usage Arguments Value
Description
Calculate pairwise fsts from a dataset in ped format
Usage
1 | fst.one.plink(raw, group1, group2, cov.thresh = 0.2, loc_names = NULL)
|
Arguments
raw |
A data.frame with data in ped format |
group1 |
A list with the individuals in group 1 |
group2 |
A list with the individuals in group 2 |
cov.thresh |
A threshold for the number of individuals in the populations (default is 0.2) |
loc_names |
Locus names to be included in the output (optional) |
Value
fst.dat A data.frame with columns: Locus Name = the locus name Hs1 = expected heterozygosity in pop 1 Hs2 = expected heterozygosity in pop 2 Hs = expected heterozygosity within populations Ht = expected heterozygosity among populations Fst = Fst NumAlleles = number of alleles at the locus Num1 = the number of individuals in pop 1 Num2 = the number of individuals in pop 2
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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