phangorn

MaRDI QIDQ20321swMATHCRANFDO

Authors Klaus Schliep, Emmanuel Paradis, Leonardo de Oliveira Martins, Iris Bardel-kahr, Alastair Potts

Last update 17 September 2024

Copyright license GNU General Public License, version 2.0, GNU General Public License, version 3.0

Software version identifier 2.11.1, PACKAGES.rds, 0.0-1, 0.0-2, 0.0-3, 0.0-4, 0.0-5, 0.99-2, 0.99-3, 0.99-4, 0.99-5, 0.99-6, 1.0-0, 1.0-1, 1.0-2, 1.1-0, 1.1-1, 1.1-2, 1.2-0, 1.3-0, 1.3-1, 1.4-0, 1.4-1, 1.5-0, 1.5-1, 1.6-0, 1.6-3, 1.6-4, 1.6-5, 1.7-1, 1.7-4, 1.99-1, 1.99-5, 1.99-7, 1.99-8, 1.99-9, 1.99-11, 1.99-12, 1.99-13, 1.99.14, 2.0.0, 2.0.1, 2.0.2, 2.0.3, 2.0.4, 2.1.1, 2.2.0, 2.3.1, 2.4.0, 2.5.3, 2.5.5, 2.6.2, 2.6.3, 2.7.0, 2.7.1, 2.8.0, 2.8.1, 2.9.0, 2.10.0, 2.12.1

Official website http://cran.r-project.org/web/packages/phangorn/index.html

Source code repository https://github.com/cran/phangorn

Description

Allows for estimation of phylogenetic trees and networks using Maximum Likelihood, Maximum Parsimony, distance methods and Hadamard conjugation (Schliep 2011). Offers methods for tree comparison, model selection and visualization of phylogenetic networks as described in Schliep et al. (2017).

Cited in

(76)

• dispRity
• OUwie
• pcmabc
• microbial
• EnvNJ
• MonoPhy
• Rphylip
• recluster
• markophylo
• BSS
• apex
• STraTUS
• haplotypes
• ips
• datelife
• ape
• SeqinR
• LASER
• Clustal
• Bayesian-weighted triplet and quartet methods for species tree inference
• Registering the evolutionary history in individual-based models of speciation
• phytools
• Modeling rate of adaptive trait evolution using Cox-Ingersoll-Ross process: an approximate Bayesian computation approach
• Consistency and convergence rate of phylogenetic inference via regularization
• BEAST
• corHMM
• rwty
• Rankcluster
• dendextend
• TreeSim
• Prokka
• TOPD/FMTS
• Analysis of phylogenetics and evolution with R
• taxize
• Uncertainty in Phylogenetic Tree Estimates
• Partitionfinder
• DensiTree
• Tracer
• treespace
• RecordLinkage
• qPR
• Treevo
• stringdist
• TERA
• OUOUCIR
• MSCquartets
• On the Maximum Agreement Subtree Conjecture for Balanced Trees
• genBaRcode
• scistreer
• DADA2
• TML
• LDM
• windex
• MorphSim
• coalescentMCMC
• rphylo
• CoalescentPhylo
• orthGS
• ppgm
• indelmiss
• BoSSA
• DCLEAR
• paleotree
• hisse
• rapidphylo
• babette
• beastier
• nodeSub
• pirouette
• POMS
• bioregion
• EvoPhylo
• phyloregion
• dowser
• liayson
• sketching

This page was built for software: phangorn