SBGNview.data
Supporting datasets for SBGNview package
Bioconductor version: Release (3.20)
This package contains: 1. A microarray gene expression dataset from a human breast cancer study. 2. A RNA-Seq gene expression dataset from a mouse study on IFNG knockout. 3. ID mapping tables between gene IDs and SBGN-ML file glyph IDs. 4. Percent of orthologs detected in other species of the genes in a pathway. Cutoffs of this percentage for defining if a pathway exists in another species. 5. XML text of SBGN-ML files for all pre-collected pathways.
Author: Xiaoxi Dong*, Kovidh Vegesna*, Weijun Luo
Maintainer: Weijun Luo <luo_weijun at yahoo.com>
citation("SBGNview.data")):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("SBGNview.data")
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("SBGNview.data")| Supporting Datasets for SBGNview Package | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | BreastCancerData, CancerData, ExperimentData, GEO, MicroarrayData, RNASeqData |
| Version | 1.20.0 |
| License | AGPL-3 |
| Depends | R (>= 3.6) |
| Imports | knitr, rmarkdown, bookdown |
| System Requirements | |
| URL |
See More
| Suggests | SummarizedExperiment |
| Linking To | |
| Enhances | |
| Depends On Me | SBGNview |
| 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 | SBGNview.data_1.20.0.tar.gz |
| Windows Binary (x86_64) | |
| macOS Binary (x86_64) | |
| macOS Binary (arm64) | |
| Source Repository | git clone https://git.bioconductor.org/packages/SBGNview.data |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/SBGNview.data |
| Package Short Url | https://bioconductor.org/packages/SBGNview.data/ |
| Package Downloads Report | Download Stats |