R/AllGenerics.R

In roryk/bcbioSinglecell: Single-Cell RNA-Seq Utilities

#' @rdname barcodeRanksPerSample
#' @export
setGeneric(
    "barcodeRanksPerSample",
    function(object, ...) {
        standardGeneric("barcodeRanksPerSample")
    }
)



#' @rdname cell2sample
#' @export
setGeneric(
    "cell2sample",
    function(object, ...) {
        standardGeneric("cell2sample")
    }
)



#' @rdname cellCountsPerCluster
#' @export
setGeneric(
    "cellCountsPerCluster",
    function(object, ...) {
        standardGeneric("cellCountsPerCluster")
    }
)



#' @rdname cellTypesPerCluster
#' @export
setGeneric(
    "cellTypesPerCluster",
    function(object, ...) {
        standardGeneric("cellTypesPerCluster")
    }
)



#' @rdname clusterCellCountsPerSample
#' @export
setGeneric(
    "clusterCellCountsPerSample",
    function(object, ...) {
        standardGeneric("clusterCellCountsPerSample")
    }
)



#' @rdname diffExp
#' @export
setGeneric(
    "diffExp",
    function(object, ...) {
        standardGeneric("diffExp")
    }
)



#' @rdname fetchData
#' @export
setGeneric(
    "fetchGeneData",
    function(object, ...) {
        standardGeneric("fetchGeneData")
    }
)



#' @rdname fetchData
#' @export
setGeneric(
    "fetchPCAData",
    function(object, ...) {
        standardGeneric("fetchPCAData")
    }
)



#' @rdname fetchData
#' @export
setGeneric(
    "fetchTSNEData",
    function(object, ...) {
        standardGeneric("fetchTSNEData")
    }
)



#' @rdname fetchData
#' @export
setGeneric(
    "fetchTSNEExpressionData",
    function(object, ...) {
        standardGeneric("fetchTSNEExpressionData")
    }
)



#' @rdname fetchData
#' @export
setGeneric(
    "fetchUMAPData",
    function(object, ...) {
        standardGeneric("fetchUMAPData")
    }
)



#' @rdname fetchData
#' @export
setGeneric(
    "fetchUMAPExpressionData",
    function(object, ...) {
        standardGeneric("fetchUMAPExpressionData")
    }
)



#' @rdname filterCells
#' @export
setGeneric(
    "filterCells",
    function(object, ...) {
        standardGeneric("filterCells")
    }
)



#' @rdname knownMarkersDetected
#' @export
setGeneric(
    "knownMarkersDetected",
    function(object, ...) {
        standardGeneric("knownMarkersDetected")
    }
)



#' @rdname metricsPerSample
#' @export
setGeneric(
    "metricsPerSample",
    function(object, ...) {
        standardGeneric("metricsPerSample")
    }
)



#' @rdname plotBarcodeRanks
#' @export
setGeneric(
    "plotBarcodeRanks",
    function(object, ...) {
        standardGeneric("plotBarcodeRanks")
    }
)



#' @rdname plotCellCounts
#' @export
setGeneric(
    "plotCellCounts",
    function(object, ...) {
        standardGeneric("plotCellCounts")
    }
)



#' @rdname plotCellTypesPerCluster
#' @export
setGeneric(
    "plotCellTypesPerCluster",
    function(object, ...) {
        standardGeneric("plotCellTypesPerCluster")
    }
)



#' @rdname plotFeature
#' @export
setGeneric(
    "plotFeatureTSNE",
    function(object, ...) {
        standardGeneric("plotFeatureTSNE")
    }
)



#' @rdname plotFeature
#' @export
setGeneric(
    "plotFeatureUMAP",
    function(object, ...) {
        standardGeneric("plotFeatureUMAP")
    }
)



#' @rdname plotGenesPerCell
#' @export
setGeneric(
    "plotGenesPerCell",
    function(object, ...) {
        standardGeneric("plotGenesPerCell")
    }
)



#' @rdname plotMarker
#' @export
setGeneric(
    "plotKnownMarkersDetected",
    function(object, ...) {
        standardGeneric("plotKnownMarkersDetected")
    }
)



#' @rdname plotMarker
#' @export
setGeneric(
    "plotMarkerTSNE",
    function(object, ...) {
        standardGeneric("plotMarkerTSNE")
    }
)



#' @rdname plotMarker
#' @export
setGeneric(
    "plotMarkerUMAP",
    function(object, ...) {
        standardGeneric("plotMarkerUMAP")
    }
)



#' @rdname plotMitoRatio
#' @export
setGeneric(
    "plotMitoRatio",
    function(object, ...) {
        standardGeneric("plotMitoRatio")
    }
)



#' @rdname plotMitoVsCoding
#' @export
setGeneric(
    "plotMitoVsCoding",
    function(object, ...) {
        standardGeneric("plotMitoVsCoding")
    }
)



#' @rdname plotNovelty
#' @export
setGeneric(
    "plotNovelty",
    function(object, ...) {
        standardGeneric("plotNovelty")
    }
)



#' @rdname plotPCElbow
#' @export
setGeneric(
    "plotPCElbow",
    function(object, ...) {
        standardGeneric("plotPCElbow")
    }
)



#' @rdname plotReadsPerCell
#' @export
setGeneric(
    "plotReadsPerCell",
    function(object, ...) {
        standardGeneric("plotReadsPerCell")
    }
)



#' @rdname plotMarker
#' @export
setGeneric(
    "plotTopMarkers",
    function(object, ...) {
        standardGeneric("plotTopMarkers")
    }
)



#' @rdname plotDimensionalReduction
#' @export
setGeneric(
    "plotTSNE",
    function(object, ...) {
        standardGeneric("plotTSNE")
    }
)



#' @rdname plotDimensionalReduction
#' @export
setGeneric(
    "plotUMAP",
    function(object, ...) {
        standardGeneric("plotUMAP")
    }
)



#' @rdname plotUMIsPerCell
#' @export
setGeneric(
    "plotUMIsPerCell",
    function(object, ...) {
        standardGeneric("plotUMIsPerCell")
    }
)



#' @rdname plotUMIsVsGenes
#' @export
setGeneric(
    "plotUMIsVsGenes",
    function(object, ...) {
        standardGeneric("plotUMIsVsGenes")
    }
)



#' @rdname plotZerosVsDepth
#' @export
setGeneric(
    "plotZerosVsDepth",
    function(object, ...) {
        standardGeneric("plotZerosVsDepth")
    }
)



#' @rdname sanitizeMarkers
#' @export
setGeneric(
    "sanitizeMarkers",
    function(object, ...) {
        standardGeneric("sanitizeMarkers")
    }
)



#' @rdname subsetPerSample
#' @export
setGeneric(
    "subsetPerSample",
    function(object, ...) {
        standardGeneric("subsetPerSample")
    }
)



#' @rdname topBarcodes
#' @export
setGeneric(
    "topBarcodes",
    function(object, ...) {
        standardGeneric("topBarcodes")
    }
)



#' @rdname topMarkers
#' @export
setGeneric(
    "topMarkers",
    function(object, ...) {
        standardGeneric("topMarkers")
    }
)