how to implement the the old "gene.groups" option in SplitDotPlotGG

[jingzhangorg]

Hi, I am trying to replicate the DotPlot by gene groups as shown in the previous issue (https://github.com/satijalab/seurat/issues/681)

However, SplitDotPlotGG was replaced by DotPlot, where I can not find the option for gene.groups (Add labeling bars to the top of the plot). Would you please suggest how to plot a figure with different gene panels?

Also, another question is that how to add a hierarchical clustering of the clusters on one side of the DotPlot? I searched but did not see an option here

Thank you

[meltager]

Me either having this problem, it was every convenient to have the labels of the genes on the same figure as well as the separation of genes make it easier to realise the graph and the marker genes, please if there is any method to do it post it, if not please consider adding it back in the next versions

[jaisonj708]

Feature groups and hierarchical clustering of idents in DotPlot is now available in the development version of Seurat. To install the development version of Seurat, please see the instructions here.

Example usage:

library(SeuratData)
InstallData("pbmc3k")
data("pbmc3k")
pbmc3k
Idents(pbmc3k) <- as.vector(pbmc3k[['seurat_annotations',drop=T]])
Idents(pbmc3k, which(is.na(Idents(pbmc3k)))) <- "Unknown"

Bcellmarks  <- c("CD19","CD79A","CD79B","MS4A1")
HLAmarks <- c("HLA-DQA1", "HLA-DQB1", "HLA-DRB3")
Monomarks <- c("CD14","VCAN","FCN1")
Tcellmarks <- c("CD3D","CD3E","CD3G","IL7R","TRAC","TRGC2","TRDC", "CD8A", "CD8B", "CD4")
DCmarks <- c(HLAmarks,"CLEC10A","CLEC9A")
platelet <- c("GP9","PF4")

features <- list("B cell" = Bcellmarks, "T cell" = Tcellmarks, "DC" = DCmarks, "Monocyte" = Monomarks, "Platelet" = platelet)
DotPlot(object = pbmc3k, features=features, cluster.idents=T) + theme(axis.text.x = element_text(angle = 90))

[jorgedb98]

Hello, Is there a way to modify the theme of the labels for the "B cell" and so on the top of the plot? Like adding angle and face using theme in ggplot?