Department of Bioinformatics – BiGCaT

Tools/Software


This a list of BiGCaT core projects. Click here for a comprehensive list of projects.

Data Analysis Pipelines

  • ArrayAnalysis: Quality Control, pre-processing, normalization and statistics of Affymetrix microarrays

Identifier Mapping

  • BridgeDb: identifier mapping framework for bioinformatics applications

Pathway and Network Analysis

  • WikiPathways: Pathways for the People

  • PathVisio: a tool to edit and analyze biological pathways

  • Facilitating PathVisio use in familiar analytical environments :

  • GoElite: extended pathway and Gene Ontology analysis

Plugins for Cytoscape:

  • CyTargetLinker: a generic Cytoscape app to build regulatory networks

  • SemScape: Visualizes Semantic Data Landscapes (Google Summer of Code project 2012)

Semantic Web

  • Open PHACTS: drug discovery in industry, academia and for small businesses

  • WikiPathways RDF: SPARQL endpoint of WikiPathways to query pathway data