R Development Page
Contributed R Packages
Below is a list of all packages provided by project coalesceR.
Important note for package binaries: R-Forge provides these binaries only for the most recent version of R, but not for older versions. In order to successfully install the packages provided on R-Forge, you have to switch to the most recent version of R or, alternatively, install from the package sources (.tar.gz).
Packages
| coalesceR | A pedagogical tool to teach the basics of coalescent theory | |||||||||
| Coalescent theory provides a powerful modeling tool for population genetics. It is based on a genealogical interpretation of the history of gene lineages in populations. Although classical population genetics theory considers the evolution of gene lineages forward in time, coalescent theory considers the genealogical history of a sample of genes, looking backward in time. In the absence of selection (i.e., if all genetic variants are selectively neutral), then the mutation process can be decoupled from the genealogical process. Therefore, selectively neutral mutations can then be superimposed on the genealogical history. This package is intended to provide a pedagogical tool to teach the basics of coalescent theory. It enables to simulate gene genealogies in an isolated population of constant effective size, or in a population that changed in size some generations in the past. Gene genealogies can be constructed using a continuous time approximation, or a generation-by-generation algorithm.Graphical outputs show the consequence of population size changes on the shape of genealogies. Mutations can then be added on the gene genealogies, and summary statistics (e.g., heterozygosity, number of alleles) can be computed from gene histories. | ||||||||||
| Version: 0.2 | Last change: 2014-11-04 21:27:04+01 | Rev.: 9 | ||||||||||
Download:
 (.tar.gz) |
 (.zip) |
Build status: Current | ||||||||||
R install command:
install.packages("coalesceR", repos="http://R-Forge.R-project.org") | ||||||||||
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Build status codes
0 - Current: the package is available for download. The corresponding package passed checks on the Linux and Windows platform without ERRORs.
1 - Scheduled for build: the package has been recognized by the build system and provided in the staging area.
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