PanVizGenerator
This package is for version 3.9 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see PanVizGenerator.
Generate PanViz visualisations from your pangenome
Bioconductor version: 3.9
PanViz is a JavaScript based visualisation tool for functionaly annotated pangenomes. PanVizGenerator is a companion for PanViz that facilitates the necessary data preprocessing step necessary to create a working PanViz visualization. The output is fully self-contained so the recipient of the visualization does not need R or PanVizGenerator installed.
Author: Thomas Lin Pedersen
Maintainer: Thomas Lin Pedersen <thomasp85 at gmail.com>
citation("PanVizGenerator")):
Installation
To install this package, start R (version "3.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("PanVizGenerator")
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("PanVizGenerator")| Creating PanViz visualizations with PanVizGenerator | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | ComparativeGenomics, GUI, Software, Visualization |
| Version | 1.12.0 |
| In Bioconductor since | BioC 3.3 (R-3.3) (8 years) |
| License | GPL (>= 2) |
| Depends | methods |
| Imports | shiny, tools, jsonlite, pcaMethods, FindMyFriends, igraph, stats, utils |
| System Requirements | |
| URL | https://github.com/thomasp85/PanVizGenerator |
| Bug Reports | https://github.com/thomasp85/PanVizGenerator/issues |
See More
| Suggests | BiocStyle, knitr, rmarkdown, testthat, digest |
| 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 | PanVizGenerator_1.12.0.tar.gz |
| Windows Binary | PanVizGenerator_1.12.0.zip |
| Mac OS X 10.11 (El Capitan) | PanVizGenerator_1.12.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/PanVizGenerator |
| Source Repository (Developer Access) | git clone [email protected]:packages/PanVizGenerator |
| Bioc Package Browser | https://code.bioconductor.org/browse/PanVizGenerator/ |
| Package Short Url | https://bioconductor.org/packages/PanVizGenerator/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.9 | Source Archive |