Other packages > Find by keyword >

Rogue  

Identify Rogue Taxa in Sets of Phylogenetic Trees
View on CRAN: Click here


Download and install Rogue package within the R console
Install from CRAN:
install.packages("Rogue")

Install from Github:
library("remotes")
install_github("cran/Rogue")

Install by package version:
library("remotes")
install_version("Rogue", "2.1.6")



Attach the package and use:
library("Rogue")
Maintained by
Martin R. Smith
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2021-07-01
Latest Update: 2023-03-20
Description:
Rogue ("wildcard") taxa are leaves with uncertain phylogenetic position. Their position may vary from tree to tree under inference methods that yield a tree set (e.g. bootstrapping, Bayesian tree searches, maximum parsimony). The presence of rogue taxa in a tree set can potentially remove all information from a consensus tree. The information content of a consensus tree - a function of its resolution and branch support values - can often be increased by removing rogue taxa. 'Rogue' provides an explicitly information-theoretic approach to rogue detection (Smith 2022) , and an interface to 'RogueNaRok' (Aberer et al. 2013) .
How to cite:
Martin R. Smith (2021). Rogue: Identify Rogue Taxa in Sets of Phylogenetic Trees. R package version 2.1.6, https://cran.r-project.org/web/packages/Rogue. Accessed 21 Dec. 2024.
Previous versions and publish date:
1.0.0 (2021-07-01 09:30), 2.0.0 (2021-09-13 17:30), 2.1.0 (2022-01-13 13:02), 2.1.1 (2022-07-20 15:30), 2.1.2 (2022-08-16 16:10), 2.1.3 (2022-09-26 13:00), 2.1.4 (2023-01-16 15:30), 2.1.5 (2023-03-20 14:20)
Other packages that cited Rogue R package
View Rogue citation profile
Other R packages that Rogue depends, imports, suggests or enhances
Complete documentation for Rogue
Functions, R codes and Examples using the Rogue R package
Some associated functions: GraphGeodesic . Rogue-package . RogueTaxa . TipInstability . TipVolatility . 
Some associated R codes: Rogue-package.R . RogueTaxa.R . SPIC.R . stability.R . utilities.R . zz_RogueNaRok.R . zzz.R .  Full Rogue 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

condGEE  
Parameter Estimation in Conditional GEE for Recurrent Event Gap Times
Solves for the mean parameters, the variance parameter, and their asymptotic variance in a condition ...
Download / Learn more Package Citations See dependency  
SEIRfansy  
Extended Susceptible-Exposed-Infected-Recovery Model
Extended Susceptible-Exposed-Infected-Recovery Model for handling high false negative rate and symp ...
Download / Learn more Package Citations See dependency  
CIFsmry  
Weighted summary of cumulative incidence functions
Estimate of cumulative incidence function in two samples. Provide weighted summary statistics based ...
Download / Learn more Package Citations See dependency  
helda  
Preprocess Data and Get Better Insights from Machine Learning Models
The main focus is on preprocessing and data visualization of machine learning models performances.So ...
Download / Learn more Package Citations See dependency  
batteryreduction  
An R Package for Data Reduction by Battery Reduction
Battery reduction is a method used in data reduction. It uses Gram-Schmidt orthogonal rotations to f ...
Download / Learn more Package Citations See dependency  
r2resize  
In-Text Resize for Images, Tables and Fancy Resize Containers in 'shiny', 'rmarkdown' and 'quarto' Documents
Automatic resizing toolbar for containers, images and tables. Various resizable or expandable contai ...
Download / Learn more Package Citations See dependency  

23,394

R Packages

201,798

Dependencies

63,416

Author Associations

23,395

Publication Badges

© Copyright 2022 - present. All right reserved, rpkg.net.  Based in Cambridge, Massachusetts, USA