SBGNview.data

DOI: 10.18129/B9.bioc.SBGNview.data    

This is the development version of SBGNview.data; to use it, please install the devel version of Bioconductor.

Demo gene expression datasets for SBGNview package

Bioconductor version: Development (3.10)

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, Weijun Luo

Maintainer: Xiaoxi Dong <dfdongxiaoxi at gmail.com>

Citation (from within R, enter citation("SBGNview.data")):

Installation

To install this package, start R (version "3.6") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

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")

 

HTML R Script SBGNview functions
PDF   Reference Manual
Text   NEWS

Details

biocViews BreastCancerData, CancerData, ExperimentData, GEO, MicroarrayData, RNASeqData
Version 0.99.18
License AGPL-3
Depends R (>= 3.6)
Imports knitr, rmarkdown
LinkingTo
Suggests SummarizedExperiment
SystemRequirements
Enhances
URL
Depends On Me SBGNview
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package SBGNview.data_0.99.18.tar.gz
Windows Binary
Mac OS X 10.11 (El Capitan)
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 http://bioconductor.org/packages/SBGNview.data/
Package Downloads Report Download Stats

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