Bgee-class              Bgee Reference Class
deleteLocalData         Delete local data for the species of the
                        reference class Bgee object
deleteOldData           Delete .rds data of one species coming from an
                        old version of the BgeeDB R package.
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 June 2018.
                        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 with an annotated phenotype
                        related to "pectoral fin", and the background
                        is composed of all zebrafish Ensembl genes with
                        an annotated phenotype from ZFIN. 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.
getCellProcessedData    Retrieve Bgee processed expression values at
                        cell level for single cell data in Bgee.
getData                 Deprecated : Retrieve Bgee RNA-seq or
                        Affymetrix data.
getIntegratedCalls      Retrieve Bgee calls from one species.
getSampleProcessedData
                        Retrieve Bgee processed expression values for
                        bulk RNA-seq, full length single-cell RNA-seq,
                        droplet based single-cell 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
