Closed MarcusLCC closed 2 years ago
@MarcusLCC, it is not possible to "subset" the model. Theoretically cell types not present in your tissue will not be assigned to your cells. Also, there is a probability output from CellTypist (cell-by-cell-type probability matrix) based on which you can drop some columns (cell types), and check how each cell is assigned across the remaining cell types.
Hi, thanks a lot for developing this tool!
May I ask if there's a way to subset the model by cell types? The scenario is the model contains some cell types that I know is absent in the tissue I'm working on, so I want to prevent it from assigning these cell types and focus only on a subset of cell types.
(I'm working on bone marrow samples, while the model like 'Immune_All_Low.pkl' is very close but also include some cell types which are usually not seen in bone marrow).
Would it be feasible and reasonable to do this? Thanks a lot for your help!
Best regards, Marcus