HGNCmap                 simple accessor for HGNCmap component of
                        TFCatalog
TFCatalog               Constructor for TFCatalog
TFCatalog-class         define a structure to hold information about
                        TFs from diverse reference sources
TFtargs                 gadget to help sort through tags naming TFs
URL_s3_tf               utility to generate link to biocfound bucket
                        for FIMO TFBS scores
cisbpTFcat              cisbpTFcat: data.frame with information on
                        CISBP TFs for human
directHitsInCISBP       demonstrate interoperation of TF catalog with
                        GWAS catalog
encode690               encode690: DataFrame extending AnnotationHub
                        metadata about ENCODE cell line x TF ranges
fimo16                  fimo16: GenomicFiles instance to AWS
                        S3-resident FIMO bed for 16 TFs
fimoMap                 fimoMap: table with Mnnnn (motif PWM tags) and
                        HGNC symbols for TFs
genemodForGviz          create a GeneRegionTrack instance for selected
                        symbols
genemodelDF             use EnsDb to generate an exon-level model of
                        genes identified by symbol
grabTab                 create table of TF targets and related metadata
gwascat_hg19_chr17      gwascat_hg19: GRanges of march 21 2018 EBI
                        gwascat, limit to chr17
hocomoco.mono           hocomoco.mono: data.frame with information on
                        HOCOMOCO TFs for human
hocomoco.mono.sep2018   hocomoco.mono.sep2018: data.frame with
                        information on HOCOMOCO TFs for human, Sept
                        2018 download
importFIMO,TabixFile,GRanges-method
                        import a FIMO bed-like file@importFrom utils
                        read.delim
importFIMO_local_split
                        utility to read FIMO outputs from local
                        resource(cluster), assuming bed text split by
                        chromosome
metadata_tf             metadata_tf: list with metadata (motif_if and
                        hgnc_symbol) about all the CISBP FIMO scan TF
                        bed files
named_tf                named_tf: named list with the names being the
                        hgnc_symbol of the motif_id
show,TFCatalog-method   produce a concise report on TFCatalog instance
tfhash                  tfhash: data.frame with MSigDb TFs, TF targets
                        as symbol or ENTREZ
tftColl                 tftColl: GSEABase GeneSetCollection for
                        transcription factor targets
tftCollMap              tftCollMap: data.frame with information on
                        MSigDb TFs for human
topTraitsOfTargets      Use MSigDB TF targets resource to find targets
                        of input TF and find traits to which these
                        targets have been mapped
