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markophylo
View on CRAN: Click
here
Download and install markophylo package within the R console
Install from CRAN:
install.packages("markophylo")
Install from Github:
library("remotes")
install_github("cran/markophylo")
Install by package version:
library("remotes")
install_version("markophylo", "1.0.9")
Attach the package and use:
library("markophylo")
Maintained by
Utkarsh J. Dang
[Scholar Profile | Author Map]
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2015-07-07
Latest Update: 2023-08-19
Description:
Allows for fitting of maximum likelihood models using Markov chains
on phylogenetic trees for analysis of discrete character data. Examples of such
discrete character data include restriction sites, gene family presence/absence,
intron presence/absence, and gene family size data. Hypothesis-driven user-
specified substitution rate matrices can be estimated. Allows for biologically
realistic models combining constrained substitution rate matrices, site rate
variation, site partitioning, branch-specific rates, allowing for non-stationary
prior root probabilities, correcting for sampling bias, etc. See Dang and Golding
(2016) for more details.
How to cite:
Utkarsh J. Dang (2015). markophylo: Markov Chain Models for Phylogenetic Trees. R package version 1.0.9, https://cran.r-project.org/web/packages/markophylo
Previous versions and publish date:
Other packages that cited markophylo R package
View markophylo citation profile
Other R packages that markophylo depends,
imports, suggests or enhances
Functions, R codes and Examples using
the markophylo R package
Some associated functions: estimaterates . estimaterates_f . markophylo-package . patterns . plottree . print.markophylo . simdata1 .
Some associated R codes: RcppExports.R . custom-general14.R . estimatesrates_f.R . Full markophylo package functions and examples
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