cleanColname            Clean the supplied string from punctuations and
                        spaces.
doAnnotation            Annotate a GRanges object using one of
                        annotation functions.
genes                   Sample RefSeq genes annotation
get2NearestFeature      Get two nearest upstream and downstream
                        annotation boundary for a position range.
getFeatureCounts        Get counts of annotation within a defined
                        window around each query range or positions.
getFeatureCountsBig     Get counts of annotation within a defined
                        window around each query range/position for
                        large annotation objects spanning greater than
                        1 billion rows.
getLowestDists          Get the lowest biological distance from the 5'
                        or 3' boundaries of query and subject.
getNearestFeature       Get nearest annotation boundary for a position
                        range.
getRelevantCol          Find the column index of interest given the
                        potential choices.
getSitesInFeature       Find overlapping positions/ranges that match
                        between the query and subject.
getUCSCtable            Obtain a UCSC annotation table given the table
                        & track name.
getWindowLabel          Generate a window size label.
hiAnnotator             Annotating GRanges objects with hiAnnotator.
makeChunks              Breaks two GRanges objects into chunks of N
                        size.
makeGRanges             Make a sorted GRanges object from a dataframe.
makeUCSCsession         Initiate UCSC genome browser session given the
                        freeze argument.
plotdisFeature          Plot distance distribution to a feature
                        boundary.
sites                   Sample Retrovirus Integration Sites data
sites.ctrl              Controls for Sample Retrovirus Integration
                        Sites data
