update

README.md

@@ -58,6 +58,7 @@ The `background` is an array representing the background probabilities for A, C,
 You can also call:
 ```
 logoplot(pfm)
+logoplot(pfm; uniform_color=true)
 ```
 to get the same results as above, where the background is set to `[0.25, 0.25, 0.25, 0.25]` by default.
 

src/plot_logo.jl

@@ -46,12 +46,13 @@ end
                    setup_off=false,
                    alpha=1.0,
                    beta=1.0,
-                   dpi=65
+                   dpi=65,
+                   uniform_color=false
                    )
     if !setup_off
         num_cols = size(data.args[1], 2)
-        @info "num_cols: $num_cols"
         xticks --> 1:1:num_cols # xticks needs to be placed here to avoid fractional xticks? weird
+        @info "num_cols: $num_cols"
         ylims --> (0, ylim_max)
         xlims --> (xlim_min, num_cols+1)
         logo_size = (_width_factor_(num_cols)*num_cols, logo_height)
@@ -69,12 +70,12 @@ end
         legend --> false
         tickdir --> :out
         grid --> false
-        dtick--> 10
         margin --> margin
         thickness_scaling --> thickness_scaling
         size --> logo_size
-        framestyle --> :zerolines
+        # framestyle --> :box
     end
+    xticks --> 1:1:size(data.args[1], 2) # xticks needs to be placed here to avoid fractional xticks? weird
     dpi --> dpi
     alpha --> alpha
     pfm = data.args[1]
@@ -84,11 +85,12 @@ end
                      logo_y_offset=logo_y_offset);
     # @info "coords: $(typeof(coords[1]))"
     for (k, v) in coords
+        color_here = uniform_color ? "#4664CB" : get(AA_PALETTE3, k, :grey)
         @series begin
             fill := 0
             lw --> 0
             label --> k
-            color --> get(AA_PALETTE3, k, :grey)
+            color --> color_here
             v.xs, v.ys
         end
     end

src/plot_logo_w_arr_gaps.jl

@@ -33,7 +33,8 @@ function logoplot_with_arrow_gaps(pfms,
     weights::AbstractVector;
     given_num_cols::Int=15,
     arrow_shape_scale_ratio::Real=0.7,
-    height_top::Real=1.7
+    height_top::Real=1.7,
+    uniform_color=true,
     )
 
     @assert length(pfms)-1 == size(ds_mats, 2) "The number of columns in ds_mats should be equal to the length of pfms - 1"
@@ -57,7 +58,8 @@ function logoplot_with_arrow_gaps(pfms,
         logoplot!(p, pfm, PlotPWM.bg; 
                     dpi=65,
                     setup_off=true, 
-                    logo_x_offset=logo_x_offset)
+                    logo_x_offset=logo_x_offset,
+                    uniform_color=uniform_color)
     end
 
     for (ind, col) in enumerate(eachcol(coords_mat))

src/plot_nothing.jl

@@ -34,7 +34,7 @@
         margin --> margin
         thickness_scaling --> thickness_scaling
         size --> logo_size
-        framestyle --> :zerolines
+        framestyle --> :none
         dpi --> dpi
     end
 end

tmp3.jl

@@ -177,10 +177,10 @@ weights = [0.3, 0.2, 0.3, 0.2]
 ds_mats = [12 6; 32 6; 235 14]
 weights = [0.5, 0.2, 0.3]
 
-
+using Plots
 p = logoplot_with_arrow_gaps(pfms, ds_mats, weights)
 
-
+savefig(p, "test.png")