addIsCoding             Add information on coding/non-coding status.
ensemblGenome-class     Class '"ensemblGenome"'
extractByGeneName       Extract subsets of refGenome by gene-name.
getGenePositions        Extract subsets of refGenome by gene-name.
overlap                 overlap function
overlapJuncs            overlapJuncs function
refExons-class          Class '"refExons"'
refGenome-class         Class '"refGenome"'
refGenome-package       Managing annotation data for reference Genomes
                        from UCSC and Ensembl.
refJunctions-class      Class '"refJunctions"'
saveGenome              Saving and loading 'refGenome' objects
ucscGenome-class        Class '"ucscGenome"'
unifyJuncs              Unification of splice-junctions.
writeDB                 Saving and loading 'refGenome' objects to and
                        from SQLite databases.
