diff --git a/NAMESPACE b/NAMESPACE index c069ce18e..9862e0d55 100644 --- a/NAMESPACE +++ b/NAMESPACE @@ -273,6 +273,7 @@ import(eds) importFrom(BiocParallel,SerialParam) importFrom(ComplexHeatmap,anno_barplot) importFrom(S4Vectors,"metadata<-") +importFrom(S4Vectors,DataFrame) importFrom(S4Vectors,metadata) importFrom(SingleCellExperiment,"counts<-") importFrom(SingleCellExperiment,"reducedDim<-") diff --git a/R/plotSCEHeatmap.R b/R/plotSCEHeatmap.R index ee78d12ff..f76c307bb 100644 --- a/R/plotSCEHeatmap.R +++ b/R/plotSCEHeatmap.R @@ -113,6 +113,8 @@ #' @importFrom grid gpar #' @importFrom ComplexHeatmap anno_barplot #' @importFrom rlang .data +#' @importFrom S4Vectors DataFrame +#' #' plotSCEHeatmap <- function(inSCE, useAssay = 'logcounts', useReducedDim = NULL, doLog = FALSE, featureIndex = NULL, cellIndex = NULL, @@ -288,7 +290,7 @@ plotSCEHeatmap <- function(inSCE, useAssay = 'logcounts', useReducedDim = NULL, #colData(SCE) <- colData(SCE)[,c(aggregateCol),drop=FALSE] ##change temp_df<-as.data.frame(colData(SCE)[,c(aggregateCol),drop=FALSE]) %>% - unite("new_colnames",1:ncol(.),sep = "_",remove = FALSE) %>% + unite("new_colnames",1:ncol(.data),sep = "_",remove = FALSE) %>% remove_rownames() %>% # mutate(aggregated_column = new_colnames) %>% # dplyr::select(new_colnames, aggregated_column) %>% @@ -380,6 +382,9 @@ plotSCEHeatmap <- function(inSCE, useAssay = 'logcounts', useReducedDim = NULL, stop('Breaks of `colorScheme` do not match with `trim`.') } + # Avoid documentation error by setting these values to NULL + # removed NOTE about namespaces. + n<-value<-NULL ### Generate HeatmapAnnotation object ca <- NULL