polyfreqs: Bayesian Population Genomics in Autopolyploids

Implements a Gibbs sampling algorithm to perform Bayesian inference on biallelic SNP frequencies, genotypes and heterozygosity (observed and expected) in a population of autopolyploids. See the published paper in Molecular Ecology Resources: Blischak et al. (2016) <doi:10.1111/1755-0998.12493>.

Install the latest version of this package by entering the following in R:
install.packages("polyfreqs")
AuthorPaul Blischak [aut, cre]
Date of publication2016-12-16 22:56:52
MaintainerPaul Blischak <blischak.4@osu.edu>
LicenseGPL (>= 2)
Version1.0.2
https://github.com/pblischak/polyfreqs

View on CRAN

Files

inst
inst/CITATION
inst/doc
inst/doc/polyfreqs_Intro.Rmd
inst/doc/polyfreqs_Intro.R
inst/doc/polyfreqs_Intro.html
src
src/ref_read_pmf.cpp
src/sample_p.cpp
src/sample_g.cpp
src/sim_ref_reads.cpp
src/RcppExports.cpp
NAMESPACE
data
data/ref_reads.rda
data/total_reads.rda
R
R/simple_freqs.R R/point_Hobs.R R/data_desc.R R/print_g.R R/point_Hexp.R R/polyfreqs.R R/sim_reads.R R/RcppExports.R R/polyfreqs_pps.R R/get_map_genotypes.R
vignettes
vignettes/polyfreqs_Intro.Rmd
README.md
MD5
build
build/vignette.rds
DESCRIPTION
man
man/polyfreqs.Rd man/total_reads.Rd man/simple_freqs.Rd man/polyfreqs_pps.Rd man/point_Hobs.Rd man/point_Hexp.Rd man/sim_reads.Rd man/ref_reads.Rd man/get_map_genotypes.Rd

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

Please suggest features or report bugs with the GitHub issue tracker.

All documentation is copyright its authors; we didn't write any of that.