Resolve #216

.gitignore

@@ -10,3 +10,4 @@
 src/*.o
 src/*.so
 src/*.dll
+.Renviron

DESCRIPTION

@@ -12,8 +12,8 @@ Authors@R: c(
         person("Leo", "Lahti", role=c("ctb"), email="leo.lahti@utu.fi", comment = c(ORCID = "0000-0001-5537-637X")),
         person("Tuomas", "Borman", role = c("ctb"), comment = c(ORCID = "0000-0002-8563-8884"))
     )
-Version: 1.35.0
-Date: 2024-07-18
+Version: 1.35.1
+Date: 2025-01-31
 License: GPL-3
 Title: Single-Cell Analysis Toolkit for Gene Expression Data in R
 Description: A collection of tools for doing various analyses of

R/plot_central.R

@@ -126,15 +126,6 @@ NULL
                 do.call(geom_boxplot, box_args)
         }
 
-        # Adding median, if requested.
-        if (show_median) {
-            plot_out <- plot_out +
-                stat_summary(
-                    fun = median, fun.min = median, fun.max = median,
-                    geom = "crossbar", width = 0.3, alpha = 0.8
-                )
-        }
-
         # Adding points.
         point_out <- .get_point_args(
             colour_by, shape_by, size_by,
@@ -153,6 +144,16 @@ NULL
         }
         plot_out <- plot_out + do.call(point_FUN, point_out$args)
 
+
+        # Adding median, if requested, after points and violin geom.
+        if (show_median) {
+            plot_out <- plot_out +
+                stat_summary(
+                    fun = median, fun.min = median, fun.max = median,
+                    geom = "crossbar", width = 0.3, alpha = 0.8
+                )
+        }
+
         # Flipping.
         if (flipped) {
             plot_out <- plot_out + coord_flip()