Open Genome Informatics represents the efforts of many bioinformatics projects.

The Open Genome Informatics group is organizing the joint efforts of Dockstore, Galaxy, GBrowse, GMOD, Informatics and Bio-computing (OICR), JBrowse, and Reactome. This is a great opportunity for students to contribute to the work of these established bioinformatics projects.

Dockstore: An open source project to bring together bioinformatics tools encapsulated in Docker with machine- and human-readable descriptions in the Command Workflow Language (CWL) or the Workflow Definition Language (WDL). Link: http://dockstore.org/.

Galaxy: An open, web-based platform for accessible, reproducible, and transparent computational biomedical research. Link: https://galaxyproject.org/.

Generic Model Organism Database (GMOD): An open source project to develop a complete set of software for creating and administering a model organism database. Link: http://gmod.org/wiki/Main_Page.

GBrowse: The Generic Genome Browser (GBrowse) is a web application for searching and displaying annotations on genomes. Link: http://gmod.org/wiki/GBrowse.

Informatics and Bio-computing (OICR): The Informatics and Bio-computing group at the Ontario Institute for Cancer Research (OICR) develops new algorithms, software, databases, visualization tools and other necessary components to interpret genome datasets. Link: http://oicr.on.ca/informatics-and-bio-computing/.

JBrowse: JBrowse is being developed as the successor to GBrowse. It is a modern, fast genome browser implemented almost entirely in JavaScript, with some server-side formatting code in Perl. Link: http://jbrowse.org/.

Reactome: A manually curated database of core pathways and reactions in human biology that functions as a data mining resource and electronic textbook. Link: http://www.reactome.org/.

SequenceServer is a BLAST server for individual use or for sharing datasets with colleagues and community. Its minimalist, modern and thoughtful design lets user focus on the Biology and getting things done. Link: http://sequenceserver.com.

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  • nodejs
  • gwt

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2016