PinPath
This is the development version of PinPath; to use it, please install the devel version of Bioconductor.
Visualization of Omics Data on Pathway Diagrams
Bioconductor version: Development (3.24)
With PinPath, you can visualize omics data onto pathways diagrams from WikiPathways and KEGG.
Author: Jarno Koetsier [aut, cre]
, Lars Eijssen [aut]
, Egon Willighagen [aut]
, Stichting Terre - The Dutch Rett Syndrome Foundation [fnd]
Maintainer: Jarno Koetsier <jarno.koetsier at gmail.com>
citation("PinPath")):
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("PinPath")
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("PinPath")| 1. WikiPathways visualization | HTML | R Script |
| 2. KEGG visualization | HTML | R Script |
| Reference Manual | ||
| NEWS | Text | |
| LICENSE | Text |
Details
| biocViews | GraphAndNetwork, KEGG, Pathways, Software, Visualization |
| Version | 0.99.3 |
| In Bioconductor since | BioC 3.24 (R-4.6) |
| License | MIT + file LICENSE |
| Depends | R (>= 4.6.0) |
| Imports | grDevices, graphics, stats, XML, xml2, magrittr, dplyr, tidyr, stringr, magick, shape, grid, gridBase, svglite, AnnotationDbi, igraph, ggraph, ggplot2, BiocFileCache, BiocGenerics, rlang |
| System Requirements | |
| URL | https://github.com/SyNUM-lab/PinPath |
| Bug Reports | https://github.com/SyNUM-lab/PinPath/issues |
See More
| Suggests | testthat (>= 3.0.0), BiocStyle, knitr, rmarkdown, rWikiPathways, org.Hs.eg.db, metaboliteIDmapping |
| 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 | PinPath_0.99.3.tar.gz |
| Windows Binary (x86_64) | PinPath_0.99.3.zip |
| macOS Binary (big-sur-x86_64) | PinPath_0.99.3.tgz |
| macOS Binary (sonoma-arm64) | PinPath_0.99.3.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/PinPath |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/PinPath |
| Bioc Package Browser | https://code.bioconductor.org/browse/PinPath/ |
| Package Short Url | https://bioconductor.org/packages/PinPath/ |
| Package Downloads Report | Download Stats |