PanVizGenerator

This package is for version 3.7 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: 3.7

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 (from within R, enter citation("PanVizGenerator")):

Installation

To install this package, start R (version "3.5") 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 PDF
NEWS Text

Details

biocViews ComparativeGenomics, GUI, Software, Visualization
Version 1.8.0
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_1.8.0.tar.gz
Windows Binary PanVizGenerator_1.8.0.zip
Mac OS X 10.11 (El Capitan) PanVizGenerator_1.8.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/PanVizGenerator
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/PanVizGenerator
Package Short Url https://bioconductor.org/packages/PanVizGenerator/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.7 Source Archive