Bioinformatics Asked on August 31, 2021
Im trying to change the active.ident to another column in metadata but this error keeps popping up! I recently upgraded to R version 4.0.2 from 3.6.1 The older version was working but the new one isn’t. I don’t understand how to fix it?
[email protected] <- [email protected]$status
Error in (function (cl, name, valueClass) :
assignment of an object of class “character” is not valid for @‘active.ident’ in an object of class
“Seurat”; is(value, "factor") is not TRUE
head([email protected])
orig.ident nCount_RNA nFeature_RNA percent.mito status RNA_snn_res.0.6 seurat_clusters
BC03_03 BC03 998414.7 3356 0.07869098 nonTumor 0 0
BC03_09 BC03 999853.6 7616 0.12964336 primary 0 0
BC03_13 BC03 998206.5 8457 0.17672205 primary 0 0
BC03_17 BC03 999535.1 7494 0.11323008 primary 0 0
I want to run the UMAP with the clusters named according to the status and not seurat clusters.However, the code isnt working..
M <- SetIdent(M, value = "status")
or more explicitly
M <- SetIdent(M, value = [email protected]$status)
You can also use the group.by argument of UMAPPlot() or other plotting functions from Seurat for that matter.
Answered by haci on August 31, 2021
Get help from others!
Recent Answers
Recent Questions
© 2024 TransWikia.com. All rights reserved. Sites we Love: PCI Database, UKBizDB, Menu Kuliner, Sharing RPP