datapplab/SBGNview: "SBGNview: Data Analysis, Integration and Visualization on SBGN Pathways"

SBGNview is a tool set for pathway based data visalization, integration and analysis. SBGNview is similar and complementary to the widely used Pathview, with the following key features: 1. Pathway definition by the widely adopted Systems Biology Graphical Notation (SBGN); 2. Supports multiple major pathway databases beyond KEGG (Reactome, MetaCyc, SMPDB, PANTHER, METACROP) and user defined pathways; 3. Covers 5,200 reference pathways and over 3,000 species by default; 4. Extensive graphics controls, including glyph and edge attributes, graph layout and sub-pathway highlight; 5. SBGN pathway data manipulation, processing, extraction and analysis.

Getting started

Package details

Author Xiaoxi Dong*, Kovidh Vegesna*, Weijun Luo
Bioconductor views DifferentialExpression GeneExpression GeneSetEnrichment GeneTarget Genetics GraphAndNetwork Metabolomics Microarray Pathways Proteomics RNASeq Sequencing SystemsBiology Visualization
MaintainerWeijun Luo <luo_weijun@yahoo.com>
LicenseAGPL-3
Version1.5.1
URL https://github.com/datapplab/SBGNview
Package repositoryView on GitHub
Installation Install the latest version of this package by entering the following in R:
install.packages("remotes")
remotes::install_github("datapplab/SBGNview")
datapplab/SBGNview documentation built on March 25, 2021, 10:30 a.m.