I noticed that some pipeline steps like Solo or Scds crash with the message:
ValueError: counts is not a valid key in adata.layers. or equivalent.
I fixed this by creating the layer in filter.py before the doublet step.
In the case of Solo everything ran through fine, however for Scds I get sort.index (No such file or directory)
Not sure what is going on there.
Description of the bug
Hi,
I noticed that some pipeline steps like Solo or Scds crash with the message:
ValueError: counts is not a valid key in adata.layers.or equivalent.I fixed this by creating the layer in filter.py before the doublet step. In the case of Solo everything ran through fine, however for Scds I get
sort.index (No such file or directory)Not sure what is going on there.Command used and terminal output
No response
Relevant files
scds.log
System information
No response