FeatureDb-class         FeatureDb objects
TxDb-class              TxDb objects
asBED,TxDb-method       Coerce to file format structures
coverageByTranscript    Compute coverage by transcript (or CDS) of a
                        set of ranges
exonicParts             Extract non-overlapping exonic or intronic
                        parts from a TxDb-like object
extendExonsIntoIntrons
                        Extend exons by a given number of bases into
                        their adjacent introns
extractTranscriptSeqs   Extract transcript (or CDS) sequences from
                        chromosome sequences
extractUpstreamSeqs     Extract sequences upstream of a set of genes or
                        transcripts
features                Extract simple features from a FeatureDb object
getPromoterSeq          Get gene promoter or terminator sequences
id2name                 Map internal ids to external names for a given
                        feature type
mapIdsToRanges          Map IDs to Genomic Ranges
mapRangesToIds          Map Genomic Ranges to IDs
mapToTranscripts        Map range coordinates between transcripts and
                        genome space
nearest-methods         Finding the nearest genomic range neighbor in a
                        TxDb
proteinToGenome         Map protein-relative coordinates to genomic
                        coordinates
select-methods          Using the "select" interface on TxDb objects
tRNAs                   Extract tRNA genomic ranges from an object
transcriptLengths       Extract the transcript lengths (and other
                        metrics) from a TxDb object
transcriptLocs2refLocs
                        Converting transcript-based locations into
                        reference-based locations
transcripts             Extract genomic features from a TxDb-like
                        object
transcriptsBy           Extract and group genomic features of a given
                        type from a TxDb-like object
transcriptsByOverlaps   Extract genomic features from a TxDb-like
                        object based on their genomic location
