MSTree
This is the development version of MSTree; to use it, please install the devel version of Bioconductor.
MSTree plotting minimum spanning tree directly from the output of ChewBBACA pipeline
Bioconductor version: Development (3.24)
This package is used to generate a graph object from the output of chewBBACA pipeline (https://chewbbaca.readthedocs.io/en/latest/). Then, the generated graph object can be used to make a minimum spanning tree (MST). The minimum spanning tree can be customized using all the available arguments. This package consists of two functions: one to build the graph and another one for plotting.
Author: Abdullah El-Kurdi [aut, cre]
Maintainer: Abdullah El-Kurdi <ak161 at aub.edu.lb>
citation("MSTree")):
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("MSTree")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("MSTree")| MSTree | HTML | R Script |
| Reference Manual |
Details
| biocViews | Clustering, ComparativeGenomics, GenomicVariation, Software |
| Version | 0.99.6 |
| In Bioconductor since | BioC 3.24 (R-4.6) |
| License | Artistic-2.0 |
| Depends | |
| Imports | igraph, ggraph, ggplot2, utils, methods, NetPathMiner |
| System Requirements | |
| URL |
See More
| Suggests | RUnit, testthat, BiocGenerics, BiocStyle, knitr, rmarkdown |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | MSTree_0.99.6.tar.gz |
| Windows Binary (x86_64) | |
| macOS Binary (big-sur-x86_64) | |
| macOS Binary (sonoma-arm64) | MSTree_0.99.6.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/MSTree |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/MSTree |
| Bioc Package Browser | https://code.bioconductor.org/browse/MSTree/ |
| Package Short Url | https://bioconductor.org/packages/MSTree/ |
| Package Downloads Report | Download Stats |