annotate_regions        A function to intersect user region data with
                        annotation data
annotations             example_annotations data
annotatr                annotatr: Annotation of Genomic Regions to
                        Functional Annotations
annotatr_cache          A global-variable to hold custom annotations
                        loaded in an R session
build_ah_annots         A helper function to build arbitrary
                        annotatinos from AnnotationHub
build_annotations       A function to build annotations from TxDb.* and
                        AnnotationHub resources
build_cpg_annots        A helper function to build CpG related
                        annotations.
build_enhancer_annots   A helper function to build enhancer annotations
                        for hg19 and mm10 from FANTOM5.
build_gene_annots       A helper function to build genic annotations.
build_hmm_annots        A helper function to build chromHMM annotations
                        for hg19 from UCSC Genome Browser.
build_lncrna_annots     A helper function to build lncRNA annotations.
builtin_annotations     Function listing which annotations are
                        available.
builtin_genomes         Function returning supported TxDb.* genomes
check_annotations       Function to check for valid annotations
expand_annotations      Function to expand annotation shortcuts
get_cellline_from_code
                        Function to return cell line from chromatin
                        annotation code
get_cellline_from_shortcut
                        Function to return cell line from chromatin
                        annotation shortcut
get_orgdb_name          Function to get correct org.* package name
                        based on genome
get_txdb_name           Function to get correct TxDb.* package name
                        based on genome
plot_annotation         Plot the number of regions per annotation
plot_categorical        Plot a categorical data variable over another
plot_coannotations      Plot pair-wise annotations across regions
plot_numerical          Plot numerical data over regions or regions
                        summarized over annotations
plot_numerical_coannotations
                        Plot numerical data occurring in pairs of
                        annotations
randomize_regions       Randomize Regions
read_annotations        Read custom annotations
read_regions            Read genomic regions in BEDX+Y format
reformat_hmm_codes      Function to recode classes from chromHMM type
                        column
subset_order_tbl        Function to subset a tbl_df or grouped_df by a
                        column
summarize_annotations   Summarize annotation counts
summarize_categorical   Summarize categorical data over groupings of
                        annotated regions
summarize_numerical     Summarize numerical data over groupings of
                        annotated regions
tidy_annotations        Function to tidy up annotation accessors for
                        visualization
