Giotto problem with Visium spatial transcriptome data in R

Question

[Hien]

Hi,

I am using Giotto in R version 4.3.1 for analyzing Visium spatial transcriptome. I have installed Giotto packages in R and checked the existence of Giotto in R with the tutorial. However, when I need to use some commands like spatFeatPlot2D or detectSpatialCorFeats etc, it always shows that:

Error in spatFeatPlot2D(visium_kidney, expression_values = "scaled", feats = kmtest$feats[1:6],  : 
  could not find function "spatFeatPlot2D"

Could anyone help me to understand and fix the problem?

Thank you!

Answer 1

[sakura]

Did you install Giotto or also Giotto Suite? I believe those functions are there https://giottosuite.readthedocs.io/en/latest/index.html