Source code

Bgee pipeline

Well documented source code of the Bgee pipeline used to generate databases and download files.

BgeeDB R package

Retrieve annotations, quantitative data and expression calls produced by the Bgee pipeline. Run GO-like enrichment analyses based on anatomical terms, where genes are mapped to anatomical terms by expression patterns.

BgeeCall R package

Generate present/absent gene expression calls for your own RNA-Seq libraries as long as the species are present in Bgee. BgeeCall uses reference intergenic regions to define a threshold of presence of expression specific to your RNA-Seq library.

IQRay

A method for Affymetrix microarray quality control which outperforms other methods in identification of poor quality arrays in datasets composed of arrays from many independent experiments.