FinePop: Fine-Scale Population Analysis

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Statistical tool set for population genetics. The package provides empirical Bayes estimator of Fst, Nei's Gst, Nei & Chesser's Gst, and Weir & Cockerham's theta adapted for pairwise comparison. It also provides interfaces to read and manipulate 'GENEPOP' format data files and allele/haplotype frequency format files.

Author
Reiichiro Nakamichi, Hirohisa Kishino, Shuichi Kitada
Date of publication
2016-12-05 08:27:23
Maintainer
Reiichiro Nakamichi <nakamichi@affrc.go.jp>
License
GPL (>= 2.0)
Version
1.2.0

View on CRAN

Man pages

clip.genepop
Remove designated markers from a GENEPOP file.
data.JSM
An example dataset of GENEPOP format and frequency format.
EBFST
Empirical Bayes estimator of Fst.
FinePop-package
\Sexpr[results=rd,stage=build]{tools:::Rd_package_title("FinePop")}
GstN
Nei's Gst.
GstNC
Nei and Chesser's Gst
read.frequency
Create an allele (haplotype) frequency data object of...
read.genepop
Create a genotype data object of populations from a GENEPOP...
thetaWC.pair
Weir and Cockerham's theta adapted for pairwise Fst.

Files in this package

FinePop
FinePop/NAMESPACE
FinePop/data
FinePop/data/data.JSM.rda
FinePop/R
FinePop/R/EBFST.R
FinePop/R/read.genepop.R
FinePop/R/read.frequency.R
FinePop/R/clip.genepop.R
FinePop/R/thetaWC.pair.R
FinePop/R/GstNC.R
FinePop/R/GstN.R
FinePop/MD5
FinePop/build
FinePop/build/partial.rdb
FinePop/DESCRIPTION
FinePop/man
FinePop/man/GstN.Rd
FinePop/man/clip.genepop.Rd
FinePop/man/GstNC.Rd
FinePop/man/thetaWC.pair.Rd
FinePop/man/FinePop-package.Rd
FinePop/man/EBFST.Rd
FinePop/man/data.JSM.Rd
FinePop/man/read.frequency.Rd
FinePop/man/read.genepop.Rd