Bgee-class              Bgee Reference Class
formatData              Format RNA-seq or Affymetrix data downloaded
                        from Bgee.
geneList                Example of gene list object used to run a
                        topAnat enrichment test, created on April 18th,
                        2017. The format of the gene list is the same
                        as the gene list required to build a
                        "'topGOdata"' object in the "'topGO"' package:
                        a vector with background genes as names, and 0
                        or 1 values depending if a gene is in the
                        foreground or not. In this example the
                        foreground genes are zebrafish genes annotated
                        with "spermatogenesis" in the Gene Ontology (or
                        annotated to children terms of
                        "spermatogenesis"), and the background is
                        composed of all zebrafish genes with at least
                        one Gene Ontology annotation. The gene list was
                        built using the biomaRt package, and the code
                        used can be found in the vignette of the
                        package.
getAnnotation           Retrieve Bgee experiments annotation for
                        targeted species and data type.
getData                 Retrieve Bgee RNA-seq or Affymetrix data.
listBgeeRelease         List Bgee releases available to use with BgeeDB
                        package
listBgeeSpecies         List species in the Bgee database and the
                        available data types for each of them
loadTopAnatData         Retrieve data from Bgee to perform GO-like
                        enrichment of anatomical terms, mapped to genes
                        by expression patterns.
makeTable               Formats results of the enrichment test on
                        anatomical structures.
topAnat                 Produces an object allowing to perform GO-like
                        enrichment of anatomical terms using the topGO
                        package
