PinPath
Visualization of Omics Data onto Pathway Diagrams
Bioconductor version: 3.24 · Package version: 0.99.4
PinPath enables flexible visualization of (omics) data onto pathways diagrams, allowing users to pinpoint where the relevant changes occur. It supports pathway diagrams from WikiPathways and KEGG, as well as custom GPML and KGML files. Data can be displayed on both native pathway layouts and network representations.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("PinPath") Details
| Maintainer | Jarno Koetsier <jarno.koetsier@gmail.com> |
| Author | Jarno Koetsier [aut, cre] (ORCID: <https://orcid.org/0000-0002-7981-1345>), Lars Eijssen [aut] (ORCID: <https://orcid.org/0000-0002-6473-2839>), Egon Willighagen [aut] (ORCID: <https://orcid.org/0000-0001-7542-0286>), Stichting Terre - The Dutch Rett Syndrome Foundation [fnd] |
| License | MIT + file LICENSE |
| URL | https://github.com/SyNUM-lab/PinPath |
| Bug Reports | https://github.com/SyNUM-lab/PinPath/issues |
| Downloads rank | 71 |
| Source branch | devel |
| biocViews | GraphAndNetwork, KEGG, Metabolomics, Network, Pathways, Proteomics, Software, Transcriptomics, Visualization |
Documentation
Download
Follow the installation instructions to use this package in your R session.
| Source package | PinPath_0.99.4.tar.gz |
| Windows binary (x86_64) | PinPath_0.99.4.zip |
| macOS binary (arm64) | PinPath_0.99.4.tgz |
| macOS binary (x86_64) | PinPath_0.99.4.tgz |
Dependencies
Depends: R (>= 4.5.0)
Imports: grDevices, graphics, stats, XML, xml2, magrittr, dplyr, tidyr, stringr, magick, shape, grid, gridBase, svglite, AnnotationDbi, igraph, ggraph, ggplot2, BiocFileCache, BiocGenerics, rlang
Suggests: testthat (>= 3.0.0), BiocStyle, knitr, rmarkdown, rWikiPathways, org.Hs.eg.db, metaboliteIDmapping