R package citation, R package reverse dependencies, R package scholars, install an r package from GitHub hy is package acceptance pending why is package undeliverable amazon why is package on hold dhl tour packages why in r package r and r package full form why is r free why r is bad which r package to install which r package has which r package which r package version which r package readxl which r package ggplot which r package fread which r package license where is package.json where is package-lock.json where is package.swift where is package explorer in eclipse where is package where is package manager unity where is package installer android where is package manager console in visual studio who r package which r package to install which r package version who is package who is package deal who is package design r and r package full form r and r package meaning what r package has what package r what is package in java what is package what is package-lock.json what is package in python what is package.json what is package installer do r package can't install r packages r can't find package r can't load package can't load xlsx package r can't install psych package r can't install sf package r Write if else in NONMEM pk pd
BAMMtools
View on CRAN: Click
here
Download and install BAMMtools package within the R console
Install from CRAN:
install.packages("BAMMtools")
Install from Github:
library("remotes")
install_github("cran/BAMMtools")
Install by package version:
library("remotes")
install_version("BAMMtools", "2.1.12")
Attach the package and use:
library("BAMMtools")
Maintained by
Pascal Title
[Scholar Profile | Author Map]
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2014-03-05
Latest Update: 2022-07-15
Description:
Provides functions for analyzing and visualizing complex
macroevolutionary dynamics on phylogenetic trees. It is a companion
package to the command line program BAMM (Bayesian Analysis of
Macroevolutionary Mixtures) and is entirely oriented towards the analysis,
interpretation, and visualization of evolutionary rates. Functionality
includes visualization of rate shifts on phylogenies, estimating
evolutionary rates through time, comparing posterior distributions of
evolutionary rates across clades, comparing diversification models using
Bayes factors, and more.
How to cite:
Pascal Title (2014). BAMMtools: Analysis and Visualization of Macroevolutionary Dynamics on Phylogenetic Trees. R package version 2.1.12, https://cran.r-project.org/web/packages/BAMMtools. Accessed 21 Nov. 2024.
Previous versions and publish date:
1.0.1 (2014-03-07 13:52), 1.0 (2014-03-05 16:41), 2.0.2 (2014-07-10 05:11), 2.0.4 (2015-03-18 17:52), 2.0.5 (2015-03-23 13:51), 2.0.6 (2015-09-10 20:03), 2.1.0 (2015-11-10 09:41), 2.1.1 (2016-03-03 05:49), 2.1.3 (2016-05-24 14:49), 2.1.4 (2016-06-10 14:00), 2.1.5 (2016-10-03 22:47), 2.1.6 (2017-02-03 08:13), 2.1.7 (2019-12-05 23:50), 2.1.8 (2021-10-18 21:40), 2.1.9 (2022-04-23 22:50), 2.1.10 (2022-07-15 21:30), 2.1.11 (2023-12-19 06:50)
Other packages that cited BAMMtools R package
View BAMMtools citation profile
Other R packages that BAMMtools depends,
imports, suggests or enhances
Complete documentation for BAMMtools
Functions, R codes and Examples using
the BAMMtools R package
Some associated functions: BAMMlikelihood . BAMMtools-data . BAMMtools . ShiftProbsTree . addBAMMlegend . addBAMMshifts . assignColorBreaks . cohorts . computeBayesFactors . credibleShiftSet . distinctShiftConfigurations . dtRates . generateControlFile . getBestShiftConfiguration . getBranchShiftPriors . getCladeRates . getCohortMatrix . getEventData . getJenksBreaks . getMarginalBranchRateMatrix . getMeanBranchLengthTree . getRateThroughTimeMatrix . getShiftNodesFromIndex . getTipRates . getmrca . marginalOddsRatioBranches . maximumShiftCredibility . plot.bammshifts . plot.credibleshiftset . plot . plotPrior . plotRateThroughTime . ratesHistogram . richColors . samplingProbs . setBAMMpriors . speciesByRatesMatrix . stepBF . subsetEventData . subtreeBAMM . summary.bammdata . summary.credibleshiftset . testTimeVariableBranches . traitDependentBAMM . transparentColor . writeEventData .
Some associated R codes: BAMMtools-data.R . BAMMtools-package.R . NU.branching.times.R . addBAMMlegend.R . addBAMMshifts.R . arc.R . areEventConfigurationsIdentical.R . areShiftSetsEqual.R . as.bammdata.R . as.phylo.bammdata.R . assignColorBreaks.R . bammLikelihood.R . bammcolors.R . barLegend.R . branchMeanRateExponential.R . cohorts.R . colorMap.R . computeBayesFactors.R . credibleShiftSet.R . cumulativeShiftProbsTree.R . distinctShiftConfigurations.R . dtRates.R . exponentialRate.R . fxnDeps.R . generateControlFile.R . getBestShiftConfiguration.R . getBranchShiftPriors.R . getCladeRates.R . getCohortMatrix.R . getDesc.R . getEventData.R . getJenksBreaks.R . getMarginalBranchRateMatrix.R . getMeanBranchLengthTree.R . getPathToRoot.R . getRateThroughTimeMatrix.R . getRecursiveSequence.R . getSequenceForwardTraversal.R . getShiftNodesFromIndex.R . getSpanningTaxonPair.R . getStartStopTimes.R . getTipRates.R . getmrca.R . inv.logit.R . logit.R . marginalOddsRatioBranches.R . marginalShiftProbsTree.R . maximumShiftCredibility.R . mkdtsegsPhylo.R . mkdtsegsPolar.R . phylogeneticMean.R . plot.bammdata.R . plot.bammshifts.R . plot.credibleshiftset.R . plotPrior.R . plotRateThroughTime.R . print.bammdata.R . rateLegend.R . ratesHistogram.R . recursivelySetNodeStates.R . samplingProbs.R . segMap.R . setBAMMpriors.R . setPhyloTreeCoords.R . setPolarTreeCoords.R . speciesByRatesMatrix.R . stepBF.R . subsetEventData.R . subtreeBAMM.R . summary.bammdata.R . summary.credibleshiftset.R . testTimeVariableBranches.R . timeIntegratedBranchRate.R . traitDependentBAMM.R . transparentColor.R . writeEventData.R . Full BAMMtools package functions and examples
Downloads during the last 30 days
Get rewarded with contribution points by
helping add
Reviews / comments / questions /suggestions ↴↴↴
Today's Hot Picks in Authors and Packages
crossrun
Joint distribution of number of crossings and the
longest run in a series of independent Bernoulli ...
Download / Learn more Package Citations See dependency
Download / Learn more Package Citations See dependency
Maintainer: Tore Wentzel-Larsen (view profile)
r2resize
Automatic resizing toolbar for containers, images and tables. Various resizable or expandable contai ...
Download / Learn more Package Citations See dependency
Download / Learn more Package Citations See dependency
Maintainer: Obinna Obianom (view profile)
pkgdepends
Find recursive dependencies of 'R' packages from various
sources. Solve the dependencies to obtain ...
Download / Learn more Package Citations See dependency
Download / Learn more Package Citations See dependency
Maintainer: Gábor Csárdi (view profile)
SCBiclust
Identifies a bicluster, a submatrix of the data such that the features and observations within the s ...
Download / Learn more Package Citations See dependency
Download / Learn more Package Citations See dependency
Maintainer: Erika S. Helgeson (view profile)
kgschart
Restore underlining numeric data from rating history graph of
KGS (an online platform of the game o ...
Download / Learn more Package Citations See dependency
Download / Learn more Package Citations See dependency
Maintainer: Kota Mori (view profile)
RcppHNSW
'Hnswlib' is a C++ library for Approximate Nearest Neighbors.
This package provides a minimal R int ...
Download / Learn more Package Citations See dependency
Download / Learn more Package Citations See dependency
Maintainer: James Melville (view profile)