| anchor_pmids | check columns of a dataframe for numerical tokens of 7 or 8... |
| browse_lambert_gwaslinks | browse several hundred disease-TF associations with... |
| browse_lambert_main | use DT::datatable to browse the Lambert table S1 |
| cisbpTFcat | cisbpTFcat: data.frame with information on CISBP TFs for... |
| cisbpTFcat_2.0 | cisbpTFcat_2.0: data.frame with information on CISBP TFs for... |
| defaultCircosParms | basic layout parameters for circos |
| demo_fimo_granges | a list of GRanges instances with TF FIMO scores returned by... |
| directHitsInCISBP | demonstrate interoperation of TF catalog with GWAS catalog |
| encode690 | encode690: DataFrame extending AnnotationHub metadata about... |
| fimo16 | fimo16: GenomicFiles instance to AWS S3-resident FIMO bed for... |
| fimo_granges | create a list of GRanges for FIMO hits in a GenomicFiles... |
| fimoMap | fimoMap: table with Mnnnn (motif PWM tags) and HGNC symbols... |
| genemodelDF | use EnsDb to generate an exon-level model of genes identified... |
| genemodForGviz | create a GeneRegionTrack instance for selected symbols |
| get_rslocs_38 | utility to obtain location etc. for rsids of SNPs |
| grabTab | create table of TF targets and related metadata |
| gwascat_hg19_chr17 | gwascat_hg19: GRanges of march 21 2018 EBI gwascat, limit to... |
| HGNCmap | simple accessor for HGNCmap component of TFCatalog |
| hocomoco.mono | hocomoco.mono: data.frame with information on HOCOMOCO TFs... |
| hocomoco.mono.sep2018 | hocomoco.mono.sep2018: data.frame with information on... |
| importFIMO | import a FIMO bed-like file@importFrom utils read.delim |
| importFIMO_local_split | utility to read FIMO outputs from local resource(cluster),... |
| lambert_snps | lambert_snps is Table S3 of Lambert et al PMID 29425488 |
| metadata_tf | metadata_tf: list with metadata (motif_if and hgnc_symbol)... |
| named_tf | named_tf: named list with the names being the hgnc_symbol of... |
| retrieve_lambert_main | acquire the Excel spreadsheet content for table S1 of Lambert... |
| seqinfo_hg19_chr17 | a Seqinfo instance for a chr17 in hg19 |
| setupHIZE | process a gene_attribute_matrix.txt file from harmonizeome... |
| show-TFCatalog-method | produce a concise report on TFCatalog instance |
| TFCatalog | Constructor for TFCatalog |
| TFCatalog-class | define a structure to hold information about TFs from diverse... |
| tffamCirc.plot | use a radial plot (by default) for motif stack |
| tffamCirc.prep | set up list of pfms in motifStack protocol |
| tfhash | tfhash: data.frame with MSigDb TFs, TF targets as symbol or... |
| TFtargs | gadget to help sort through tags naming TFs |
| tftColl | tftColl: GSEABase GeneSetCollection for transcription factor... |
| tftCollMap | tftCollMap: data.frame with information on MSigDb TFs for... |
| topTraitsOfTargets | Use MSigDB TF targets resource to find targets of input TF... |
| URL_s3_tf | utility to generate link to biocfound bucket for FIMO TFBS... |
