Currently, CELLTYPE_ASSIGNMENT:CELLTYPES_CELLTYPIST fails for data other than from human:
Traceback (most recent call last):
File ".command.sh", line 42, in <module>
predictions = celltypist.annotate(
^^^^^^^^^^^^^^^^^^^^
File "/opt/conda/lib/python3.12/site-packages/celltypist/annotate.py", line 81, in annotate
predictions = clf.celltype(mode = mode, p_thres = p_thres)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/opt/conda/lib/python3.12/site-packages/celltypist/classifier.py", line 355, in celltype
raise ValueError(
ValueError: 🛑 No features overlap with the model. Please provide gene symbols
Description of feature
Currently, CELLTYPE_ASSIGNMENT:CELLTYPES_CELLTYPIST fails for data other than from human:
However, Celltypist supports species conversion. See this issue for details.
There are many ways one can approach a fix two this:
The last provides more flexibility for users that train their own model.