Other packages > Find by keyword >

SiPhyNetwork  

A Phylogenetic Simulator for Reticulate Evolution
View on CRAN: Click here


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

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

Install by package version:
library("remotes")
install_version("SiPhyNetwork", "1.1.0")



Attach the package and use:
library("SiPhyNetwork")
Maintained by
Joshua Justison
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2022-09-20
Latest Update: 2023-04-14
Description:
A simulator for reticulate evolution under a birth-death-hybridization process. Here the birth-death process is extended to consider reticulate Evolution by allowing hybridization events to occur. The general purpose simulator allows the modeling of three different reticulate patterns: lineage generative hybridization, lineage neutral hybridization, and lineage degenerative hybridization. Users can also specify hybridization events to be dependent on a trait value or genetic distance. We also extend some phylogenetic tree utility and plotting functions for networks. We allow two different stopping conditions: simulated to a fixed time or number of taxa. When simulating to a fixed number of taxa, the user can simulate under the Generalized Sampling Approach that properly simulates phylogenies when assuming a uniform prior on the root age.
How to cite:
Joshua Justison (2022). SiPhyNetwork: A Phylogenetic Simulator for Reticulate Evolution. R package version 1.1.0, https://cran.r-project.org/web/packages/SiPhyNetwork
Previous versions and publish date:
1.0.0 (2022-09-20 11:16), 1.0.1 (2022-09-29 12:50)
Other packages that cited SiPhyNetwork R package
View SiPhyNetwork citation profile
Other R packages that SiPhyNetwork depends, imports, suggests or enhances
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

multiocc  
Fits Multivariate Spatio-Temporal Occupancy Model
Spatio-temporal multivariate occupancy models can handle multiple species in occupancy models. This ...
Download / Learn more Package Citations See dependency  
ismev  
An Introduction to Statistical Modeling of Extreme Values
Functions to support the computations carried out in `An Introduction to Statistical Modeling of Ex ...
Download / Learn more Package Citations See dependency  
gclus  
Clustering Graphics
Orders panels in scatterplot matrices and parallel coordinate displays by some merit index. Package ...
Download / Learn more Package Citations See dependency  
MatrixEQTL  
Matrix eQTL: Ultra Fast eQTL Analysis via Large Matrix Operations
Matrix eQTL is designed for fast eQTL analysis on large datasets. Matrix eQTL can test for associat ...
Download / Learn more Package Citations See dependency  
stagePop  
Modelling the Population Dynamics of a Stage-Structured Species in Continuous Time
Provides facilities to implement and run population models of stage-structured species... ...
Download / Learn more Package Citations See dependency  
CompoundEvents  
Statistical Modeling of Compound Events
Tools for extracting occurrences, assessing potential driving factors, predicting occurrences, and q ...
Download / Learn more Package Citations See dependency  

22,114

R Packages

188,080

Dependencies

55,244

Author Associations

22,115

Publication Badges

© Copyright 2022 - present. All right reserved, rpkg.net. Contact Us / Suggestions / Concerns