Rename 'images' in Seurat object

[cathalgking]

Hi. I have 4 images in my Seurat object that were read in via the read10x() function individually and then merged. The images came from 1 slide of a 10x Visium experiment (1 from each of the 4 capture areas). I would like to rename the image names. Now they are called ''slice1'', slice.1.1'' etc. How can I do this?

Thanks

[Jiayi-Zheng]

I've never tried visium with seurat but based on the formatting I saw, try:
seu_spe$images$YOURNAME = seu_spe$images$slice1
seu_spe$images$slice1 = NULL?

[mcrewcow]

Hi cathalgking,

You could try copying the image (seurat_object@images$new_name <- ...$old_name) yet the reason you have those labels is because of the key parameter.
Next time you create the objects, set the names in the keys (key = "image_") to get the proper annotation.

[fangyang-cbio]

Would you explain how to set the keys name? Is it in Load10X_Spatial()? Thank you!

[RheinerAlkohol]

Hey,

I used Load10X_Spatial("yourdir", slice = "image_name").

[keenhl]

You could do something like this.

names(object@images) <- image_names