Mm.c2                   Mm.c2 from Bioconductor workflow RNAseq123
OmicNavigator-package   OmicNavigator
addAnnotations          Add annotations
addAssays               Add assays
addBarcodes             Add barcode plot metadata
addEnrichments          Add enrichment results
addEnrichmentsLinkouts
                        Add linkouts to external resources in the
                        enrichments table
addFeatures             Add feature metadata
addMapping              Add mapping object
addMetaAssays           Add metaAssays
addMetaFeatures         Add meta-feature metadata
addMetaFeaturesLinkouts
                        Add linkouts to external resources in the
                        metaFeatures table
addModels               Add models
addObjects              Add objects
addOverlaps             Add overlaps between annotation gene sets
addPlots                Add custom plotting functions
addReports              Add reports
addResults              Add inference results
addResultsLinkouts      Add linkouts to external resources in the
                        results table
addSamples              Add sample metadata
addTests                Add tests
basal.vs.lp             basal.vs.lp from Bioconductor workflow
                        RNAseq123
basal.vs.ml             basal.vs.ml from Bioconductor workflow
                        RNAseq123
cam.BasalvsLP           cam.BasalvsLP from Bioconductor workflow
                        RNAseq123
cam.BasalvsML           cam.BasalvsML from Bioconductor workflow
                        RNAseq123
combineStudies          Combine two or more studies
createStudy             Create a study
exportStudy             Export a study
getAnnotations          Get annotations from a study
getAssays               Get assays from a study
getBarcodeData          Get data for barcode and violin plots
getBarcodes             Get barcodes from a study
getEnrichments          Get enrichments from a study
getEnrichmentsAnnotations
                        Get the annotations for the enrichments of an
                        installed OmicNavigator study
getEnrichmentsIntersection
                        getEnrichmentsIntersection
getEnrichmentsLinkouts
                        Get enrichments table linkouts from a study
getEnrichmentsModels    Get the models for the enrichments of an
                        installed OmicNavigator study
getEnrichmentsNetwork   Get enrichments network from a study
getEnrichmentsStudies   Get installed OmicNavigator studies that have
                        enrichments
getEnrichmentsTable     Get enrichments table from a study
getEnrichmentsUpset     getEnrichmentsUpset
getFavicons             Get favicon URLs for table linkouts
getFeatures             Get features from a study
getInstalledStudies     Get installed OmicNavigator studies
getLinkFeatures         Get the shared features in a network link
getMapping              Get mapping object from a study
getMetaAssays           Get metaAssays from a study
getMetaFeatures         Get metaFeatures from a study
getMetaFeaturesLinkouts
                        Get metaFeatures table linkouts from a study
getMetaFeaturesTable    Get metaFeatures for a given feature
getModels               Get models from a study
getNodeFeatures         Get the features in a network node
getObjects              Get objects from a study
getOverlaps             Get overlaps from a study
getPackageVersion       Get version of OmicNavigator package
getPlots                Get plots from a study
getPlottingData         Get plotting data from an OmicNavigator study
getReportLink           Get link to report
getReports              Get reports from a study
getResults              Get results from a study
getResultsIntersection
                        getResultsIntersection
getResultsLinkouts      Get results table linkouts from a study
getResultsModels        Get the models for the results of an installed
                        OmicNavigator study
getResultsStudies       Get installed OmicNavigator studies that have
                        results
getResultsTable         Get results table from a study
getResultsTests         Get the tests for the results of an installed
                        OmicNavigator study
getResultsUpset         getResultsUpset
getSamples              Get samples from a study
getStudyMeta            Get study metadata
getTests                Get tests from a study
getUpsetCols            getUpsetCols
group                   group from Bioconductor workflow RNAseq123
importStudy             Import a study package
installApp              Install the OmicNavigator web app
installStudy            Install a study as an R package
lane                    lane from Bioconductor workflow RNAseq123
lcpm                    lcpm from Bioconductor workflow RNAseq123
plotStudy               Invoke a custom plotting function
removeStudy             Remove an installed study R package
samplenames             samplenames from Bioconductor workflow
                        RNAseq123
startApp                Start app on local machine
summary.onStudy         Summarize elements of OmicNavigator study
validateStudy           Validate a study
