more docs

Author: HelenaLC

NAMESPACE

@@ -54,6 +54,8 @@ importFrom(SummarizedExperiment,colData)
 importFrom(anndataR,read_zarr)
 importFrom(arrow,open_dataset)
 importFrom(grDevices,col2rgb)
+importFrom(grDevices,colorRampPalette)
+importFrom(grDevices,rainbow)
 importFrom(grDevices,rgb)
 importFrom(methods,as)
 importFrom(methods,is)

R/plot-image.R

@@ -1,6 +1,18 @@
 #' @name sd_plot_image
 #' @title Plot `ImageArray`
 #' 
+#' @param x \code{\link{SpatialData}} object.
+#' @param i scalar integer or string; 
+#'   specifies which \code{images} to plot.
+#' @param k resolution; if NULL (default), picking 
+#'   best for given \code{w}idth and \code{h}eight.
+#' @param c character vector of colors to use;
+#'   if NULL (default), using \code{rainbow()}.
+#' @param ch integer or character vector
+#'   specifying which channels to render.
+#' @param cl list of channel-wise contrast limits.
+#' @param w,h render width and height in pixel.
+#' 
 #' @return \code{ggplot}
 #' 
 #' @examples

R/plot-label.R

@@ -1,6 +1,15 @@
 #' @name sd_plot_label
 #' @title Plot `LabelArray`
 #' 
+#' @param x \code{\link{SpatialData}} object.
+#' @param i scalar integer or string; 
+#'   specifies which \code{labels} to plot.
+#' @param k resolution; if NULL (default), picking 
+#'   best for given \code{w}idth and \code{h}eight.
+#' @param c character vector of colors to use;
+#'   if NULL (default), using \code{rainbow()}.
+#' @param w,h render width and height in pixel.
+#' 
 #' @return \code{ggplot}
 #' 
 #' @examples
@@ -14,8 +23,7 @@
 #' @importFrom DelayedArray realize
 #' @importFrom grDevices rgb rainbow colorRampPalette
 #' @export
-sd_plot_label <- \(x, i=1, k=NULL, c=NULL, w=800, h=800, ...) {
-    c <- pal
+sd_plot_label <- \(x, i=1, k=NULL, c=NULL, w=800, h=800) {
     la <- x@labels[[i]]
     if (is.null(k)) 
         k <- .guess_scale(la, w, h)