plot_cluster {musicatk} | R Documentation |
The clustering results can be visualized on a UMAP panel. Three different types of plots can be generated using this function: cluster-by-signature plot, cluster-by-annotation plot, and a single UMAP plot.
plot_cluster(result, clusters, group = "signature", annotation = NULL)
result |
A |
clusters |
The result generated from cluster_exposure function. |
group |
A single character string indicating the grouping factor. Possible options are: "signature" (columns are signatures in a grid), "annotation" (columns are sample annotation), and "none" (a single UMAP plot). Default is "signature". |
annotation |
Column name of annotation. |
Generate a ggplot object.
set.seed(123) data(res_annot) #Get clustering result clust_out <- cluster_exposure(result = res_annot, nclust = 2) #UMAP create_umap(result = res_annot) #generate cluster X signature plot plot_cluster(result = res_annot, clusters = clust_out, group = "signature") #generate cluster X annotation plot plot_cluster(result = res_annot, clusters = clust_out, group = "annotation", annotation = "Tumor_Subtypes") #generate a single UMAP plot plot_cluster(result = res_annot, clusters = clust_out, group = "none")