extracting input files form Seurat

Question

[rasing02]

Hi,

I am using codes pasted below to obtain Volcano plots, dot plots, feature plot etc for the single cell data analysis by using commands pasted below:

VlnPlot(Seurat_object, features = "X", group.by = "Names",split.by= "condition", slot="data")
DotPlot(Seurat_object, features ="X") + RotatedAxis()
RidgePlot(Seurat_object, features = "X", assay = "RNA", group.by = "condition",slot="data")
FeaturePlot(Seurat_object, features = "X", slot="data", split.by= "condition",label=TRUE)

I wanted to learn how to extract the input files Seurat uses to generate these figures?

Thank you

Best,
R

[GenoMax]

Just to be clear, you want to export the (input) data used for plots into actual files?

[rasing02]

Yes, I just need the input data so that investigators can use tools other than R to visualize the data in form of viloin plots or feature plots or dot plots or box plots etc

[rasing02]

Thank you jared.andrews07

Answer 1

[jared.andrews07]

You can get the data behind any of the plots easily enough:

p <- VlnPlot(Seurat_object, features = "X", group.by = "Names",split.by= "condition", slot="data")
p$data # Contains all the info used in the plot.

[rasing02]

Thank you for your help