Journal
BIOINFORMATICS
Volume 38, Issue 5, Pages 1473-1476Publisher
OXFORD UNIV PRESS
DOI: 10.1093/bioinformatics/btab793
Keywords
-
Categories
Funding
- National Science Foundation [ABI-1565030]
Ask authors/readers for more resources
SBGNview is a comprehensive R package that addresses the limitations in pathway analysis and data visualization by adopting the standard SBGN format. It greatly extends pathway coverage and data format, and provides essential infrastructure for manipulating and processing SBGN data.
A Summary: Pathway analysis is widely used in genomics and omics research, but the data visualization has been highly limited in function, pathway coverage and data format. Here, we develop SBGNview a comprehensive R package to address these needs. By adopting the standard SBGN format, SBGNview greatly extend the coverage of pathway-based analysis and data visualization to essentially all major pathway databases beyond KEGG, including 5200 reference pathways and over 3000 species. In addition, SBGNview substantially extends or exceeds current tools (esp. Pathview) in both design and function, including standard input format (SBGN), high-quality output graphics (SVG format) convenient for both interpretation and further update, and flexible and open-end workflow for iterative editing and interactive visualization (Highlighter module). In addition to pathway analysis and data visualization, SBGNview provides essential infrastructure for SBGN data manipulation and processing.
Authors
I am an author on this paper
Click your name to claim this paper and add it to your profile.
Reviews
Recommended
No Data Available