Important Notice: Our web hosting provider recently started charging us for additional visits, which was unexpected. In response, we're seeking donations. Depending on the situation, we may explore different monetization options for our Community and Expert Contributors. It's crucial to provide more returns for their expertise and offer more Expert Validated Answers or AI Validated Answers. Learn more about our hosting issue here.

Does GSEA have a programmatic API? What languages are supported?

April 26, 2017API gsea Languages Programmatic supported

0

Posted

Does GSEA have a programmatic API? What languages are supported?

1 Answer

0

Posted

The Broad Institute provides R and Java APIs on the Downloads page. John Aach (Department of Genetics, Harvard Medical School) implemented a simplified version of the GSEA algorithm in MATLAB as part of the paper Global gene expression of Prochlorococcus ecotypes in response to changes in nitrogen availability. Aach notes that the MATLAB code supports only that portion of the GSEA algorithm required for the paper: it processes a particular file format, its significance calculations are performed by shuffling genes only and not phenotypes, and it does not include multiple hypothesis corrections for different gene sets.