Coalescent simulators can rapidly simulate biological sequences evolving according to a given model of evolution. You can use this package to specify such models, to conduct the simulations and to calculate additional statistics from the results (Staab, Metzler, 2016 <doi:10.1093/bioinformatics/btw098>). It relies on existing simulators for doing the simulation, and currently supports the programs 'ms', 'msms' and 'scrm'. It also supports finite-sites mutation models by combining the simulators with the program 'seq-gen'. Coala provides functions for calculating certain summary statistics, which can also be applied to actual biological data. One possibility to import data is through the 'PopGenome' package (<https://github.com/pievos101/PopGenome>).
Version: 0.7.2 Depends: R (≥ 3.1.0) Imports: assertthat (≥ 0.1), digest, methods, parallel, R6 (≥ 2.0.1), Rcpp (≥ 0.11.0), rehh (≥ 3.0.0), scrm (≥ 1.6.0-2), stats, utils LinkingTo: Rcpp, RcppArmadillo (≥ 0.3.810.0) Suggests: abc (≥ 2.0), knitr, PopGenome (≥ 2.1.0), phyclust (≥ 0.1-16), rmarkdown, testthat (≥ 0.11.0) Published: 2024-03-04 DOI: 10.32614/CRAN.package.coala Author: Paul Staab [aut], Dirk Metzler [aut, ths, cre], Jorge E. Amaya Romero [ctb] Maintainer: Dirk Metzler <metzler at bio.lmu.de> BugReports: https://github.com/statgenlmu/coala/issues License: MIT + file LICENSE URL: https://github.com/statgenlmu/coala NeedsCompilation: yes Citation: coala citation info Materials: README NEWS CRAN checks: coala results Documentation: Downloads: Reverse dependencies: Linking:Please use the canonical form https://CRAN.R-project.org/package=coala to link to this page.
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