docs update

Author: phoman14

.Rhistory

@@ -1,13 +1,3 @@
-filter.condition = TRUE,
-parameter.name = "My_CoExp",
-trim.marker.1 = FALSE,
-trim.marker.2 = FALSE,
-pre.scale.trim = 0.99,
-display.unscaled.values = FALSE)
-plot(DLAnno_SO$plot_umap)
-ggsave(plot(DLAnno_SO$plot_densityHM), filename = "./images/DL1.png", width = 10, height = 10)
-ggsave(plot(DLAnno_SO$plot_umap), filename = "./images/DL2.png", width = 10, height = 10)
-ggsave(plot(DLAnno_SO$plot_densityHM), filename = "./images/DL1.png", width = 10, height = 10)
 ggsave(plot(DLAnno_SO$plot_umap), filename = "./images/DL2.png", width = 10, height = 10)
 pngs(DLAnno_SO$plot_densityHM, filename = "./images/DL1.png", width = 10, height = 10)
 ?pngs
@@ -510,3 +500,13 @@ dot.color = "darkblue"
 )
 ggsave(FigOut$plot, filename = "./images/DPM.png", width = 9, height = 6)
 remotes::install_github("NIDAP-Community/SCWorkflow", dependencies = TRUE)
+UMAP3D
+load_all()
+?load_all()
+library(devtools)
+load_all()
+UMAP3D
+library(ggplot2)
+load_all()
+document()
+install_version("ggplot2", version = "3.9", repos = "http://cran.us.r-project.org")

README.md

@@ -10,7 +10,7 @@ R package for Single Cell analysis
 [![](https://raw.githubusercontent.com/NIDAP-Community/SCWorkflow/GalaxyCLI/vignettes/SCWorkflow.png)](https://lucid.app/lucidchart/c7b852ad-72dc-4821-90d5-e45bed0c4199/view)
 
 
-<center>**Click Figure to Navigate Workflow**.</center>
+<center>**Click Figure to Navigate Workflow**</center>
 
 <br>
 <br>

docs/articles/SCWorkflow-Annotations.html

@@ -10,7 +10,7 @@ articles:
   SCWorkflow-SubsetReclust: SCWorkflow-SubsetReclust.html
   SCWorkflow-Usage: SCWorkflow-Usage.html
   SCWorkflow-Visualizations: SCWorkflow-Visualizations.html
-last_built: 2025-10-28T20:10Z
+last_built: 2025-10-30T19:57Z
 urls:
   reference: https://nidap-community.github.io/SCWorkflow/reference
   article: https://nidap-community.github.io/SCWorkflow/articles