GenePattern is a powerful scientific workflow system that provides access to hundreds of genomic analysis tools. Use these analysis tools as building blocks to design sophisticated analysis pipelines that capture the methods, parameters, and data used to produce analysis results. Pipelines can be used to create, edit and share reproducible in silico results.
Reproducibility: Automated history and provenance tracking with versioning so that any user can share, repeat and understand a complete computational analysis
Extensibility: Computational users can import their methods and code for sharing using tools that support easy creation and integration
Multiple interfaces: Web browser, application, and programmatic interfaces make analysis modules and pipelines available to a broad range of users; public hosted server
A programmatic interface that makes analysis modules available to computational biologists and developers from Python, Java, MATLAB, and R.
The GenePattern Notebook Environment: Built on the Jupyter Notebook environment, GenePattern Notebook allows researchers to run GenePattern analyses within notebooks that interleave text, graphics, and executable code, creating a single "research narrative."
GParc: Repository and community for GenePattern users to share and discuss their own GenePattern modules
Availability
GenePattern is available:
As a free public web application, hosted on Amazon Web Services. Users can create accounts, perform analyses, and create pipelines on the server.
