PanViz
This is the development version of PanViz; for the stable release version, see PanViz.
Integrating Multi-Omic Network Data With Summay-Level GWAS Data
Bioconductor version: Development (3.20)
This pacakge integrates data from the Kyoto Encyclopedia of Genes and Genomes (KEGG) with summary-level genome-wide association (GWAS) data, such as that provided by the GWAS Catalog or GWAS Central databases, or a user's own study or dataset, in order to produce biological networks, termed IMONs (Integrated Multi-Omic Networks). IMONs can be used to analyse trait-specific polymorphic data within the context of biochemical and metabolic reaction networks, providing greater biological interpretability for GWAS data.
Author: Luca Anholt [cre, aut]
Maintainer: Luca Anholt <la1317 at ic.ac.uk>
citation("PanViz")
):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("PanViz")
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("PanViz")
PanViz | HTML | R Script |
Reference Manual |
Details
biocViews | GenomeWideAssociation, GraphAndNetwork, KEGG, Metabolomics, Network, Reactome, SNP, Software |
Version | 1.7.0 |
In Bioconductor since | BioC 3.16 (R-4.2) (2 years) |
License | Artistic-2.0 |
Depends | R (>= 4.2.0) |
Imports | tidyr, stringr, dplyr, tibble, magrittr, futile.logger, utils, easycsv, rentrez, igraph, RColorBrewer, data.table, colorspace, grDevices, rlang, methods |
System Requirements | |
URL | https://github.com/LucaAnholt/PanViz |
Bug Reports | https://github.com/LucaAnholt/PanViz/issues |
See More
Suggests | testthat (>= 3.0.0), BiocStyle, knitr, rmarkdown, networkD3 |
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 | PanViz_1.7.0.tar.gz |
Windows Binary | PanViz_1.7.0.zip |
macOS Binary (x86_64) | PanViz_1.7.0.tgz |
macOS Binary (arm64) | PanViz_1.7.0.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/PanViz |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/PanViz |
Bioc Package Browser | https://code.bioconductor.org/browse/PanViz/ |
Package Short Url | https://bioconductor.org/packages/PanViz/ |
Package Downloads Report | Download Stats |