Update PFCdevApp.qmd

PFCdevApp.qmd

@@ -55,11 +55,7 @@ Spatial data
 </p>
 
 <p style="font-size: 20px; text-align: justify;">
-We collected the whole brain stereo-seq datasets of P1 and Adult mice from [(Han et al., Neuron, 2025)](https://doi.org/10.1016/j.neuron.2025.02.015
-        
-        
-        
-        , extracted and analyzed the PFC brain region. Users can browse the following content through the spatial page:
+We collected the whole brain stereo-seq datasets of P1 and Adult mice from [(Han et al., Neuron, 2025)](https://doi.org/10.1016/j.neuron.2025.02.015, extracted and analyzed the PFC brain region. Users can browse the following content through the spatial page:
 </p>
 
 - Spatial Clustering: Select different cell subtypes to view their spatial distribution
@@ -228,9 +224,15 @@ output$gene_plot <- renderPlot({
 
 
 output$vln_plot <- renderPlot({
-    VlnPlot(seu(), features = input$gene, group.by = input$celltype, pt.size = 0) +
-    NoLegend() +
-    labs(x="")
+  data <- data.frame(
+    Gene = as.numeric(seu()[["RNA"]]@data[input$gene, ]),
+    Cluster = seu()@meta.data[,input$celltype]
+  )
+  ggplot(data, aes(x=Cluster, y=Gene, fill=Cluster)) +
+    geom_violin(scale = "width", adjust=1, trim=T) +
+    scale_fill_manual(values = col_cluster[[input$celltype]]) +
+    theme_classic(base_size = 15) +
+    theme(legend.position = "none")
 })
 ```