RaggedMongoExpt         bind colData to a mongo-based ragged-experiment
                        incubator
URL_txregInAWS          return mongodb URL for working mongo server
URL_txregLocal          local mongodb txregnet
addsyms                 add gene symbols to a GRanges that uses ensembl
                        identifiers
basicColData            basicColData: metadata about a small collection
                        of files for demonstrating TxRegInfra
basicFormatter          operate on a character vector to derive a
                        DataFrame, splitting on a tokenand retrieving
                        first and last split fragments as 'base' and
                        'type' fields
demo_eQTL_granges       a GRanges instance with eQTL metadata returned
                        by 'sbov'
demo_fimo_granges       a list of GRanges instances with TF FIMO scores
                        returned by 'fimo_granges'
dgf_meta                dgf_meta: metadata about a small collection of
                        bed files for demonstrating TxRegInfra
dnmeta                  metadata about DNaseI hotspots from ENCODE
dnmetaApp               support search of hotspot/peak data from ENCODE
getDocumentFields       determine the fields present in a txregnet
                        document
getFieldNames           get names of fields in a collection in remote
                        txregnet
grConverter             convert a GRanges to a JSON query for mongodb
importBedToMongo        arrange import to mongo using mongoimport,
                        setting up type and fields appropriately
listAllCollections      list all collections in a database, using
                        command-line interface
makeAggregator          generate JSON to aggregate (counting records,
                        and, by default, averaging a given variable)
                        within a collection
makeColData             generate a colData component corresponding to a
                        mongodb
makeGRConverterList     generate a list of GRanges to JSON for queries
                        to mongo
oldbasicColData         oldbasicColData: metadata about a small
                        collection of files for demonstrating
                        TxRegInfra
ragged41FP              ragged41FP: A RaggedExperiment instance with
                        digital genomic footprints over the coding
                        region of ORMDL3
sbov                    prototype of subsetter for mongo resource
sbov_output_FP          a GRanges instance with digital genomic
                        footprint metadata returned by 'sbov'
sbov_output_HS          a GRanges instance with DnaseI hotspot metadata
                        returned by 'sbov'
sbov_output_eQTL        a GRanges instance with eQTL metadata returned
                        by 'sbov'
sbov_to_graphNEL        convert sbov() output to annotated graphNEL
txmodels                use Gviz to render transcript models via
                        GeneRegionTrack, but keep lightweight through
                        requireNamespace and suggestion for
                        installation
txregCollections        list collections in AWS mongo server for
                        txregnet
verifyHasMongoCmd       check for existence of 'mongo' command, for
                        db.getCollectionNames etc.
verifyRunningMongodb    check for accessible local mongodb
