This package is hidden from search results because it is not hosted in the universe of the upstream owner
dosreislab. To fix this you can add URL: https://phylotastic.r-universe.dev/bppr to the package DESCRIPTION file. See also theR-universe documentation.Package: bppr 0.6.4
bppr: An R package for BPP
Functions to work with the multi-species coalescent program BPP, for example, functions to calibrate BPP trees to geological time.
Authors:
bppr_0.6.4.tar.gz
bppr_0.6.4.zip(r-4.7)bppr_0.6.4.zip(r-4.6)bppr_0.6.4.zip(r-4.5)
bppr_0.6.4.tgz(r-4.6-any)bppr_0.6.4.tgz(r-4.5-any)
bppr_0.6.4.tar.gz(r-4.7-any)bppr_0.6.4.tar.gz(r-4.6-any)
bppr_0.6.4.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
bppr/json (API)
NEWS
| # Install 'bppr' in R: |
| install.packages('bppr', repos = c('https://phylotastic.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/dosreislab/bppr/issues
Datasets:
- hominids - A BPP A00 MCMC sample for an hominid phylogeny
- microcebus - A BPP A00 MCMC sample for a mouse lemur phylogeny
Last updated from:a35de7a652. Checks:7 WARNING, 2 OK. Indexed: no.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| linux-devel-x86_64 | WARNING | 104 | ||
| source / vignettes | OK | 142 | ||
| linux-release-x86_64 | WARNING | 97 | ||
| macos-release-arm64 | WARNING | 78 | ||
| macos-oldrel-arm64 | WARNING | 71 | ||
| windows-devel | WARNING | 70 | ||
| windows-release | WARNING | 58 | ||
| windows-oldrel | WARNING | 87 | ||
| wasm-release | OK | 83 |
Exports:bayes.factorsdslnormgauss.quadmake.betamake.bfctlfmcmc.summarymcmc2densitreemcmc2multiphylomsc2time.rmsc2time.tpslnormqslnormrslnormstepping.stones
Dependencies:
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Calculate Bayes factors and posterior model probabilities | bayes.factors |
| Estimate marginal likelihood by thermodynamic integration | gauss.quad |
| A BPP A00 MCMC sample for an hominid phylogeny | hominids |
| Make beta values for marginal likelihood calculation | make.beta |
| Prepare mcmctree or bpp control files for marginal likelihood calculation | make.bfctlf |
| MCMC summary | mcmc.summary |
| Plot a densi-tree from an MCMC sample | mcmc2densitree |
| Convert an MCMC sample from BPP or MCMCTree to a list of trees | mcmc2multiphylo |
| A BPP A00 MCMC sample for a mouse lemur phylogeny | microcebus |
| Time-calibrate a multi-species phylogeny | msc2time msc2time.r msc2time.t |
| The Shifted Log-normal Distribution | dslnorm pslnorm qslnorm rslnorm ShiftedLognormal |
| Estimate marginal likelihood by stepping stones | stepping.stones |
