Do not update celltypist models when using a built-in model (#124)

* Do not update celltypist models when using a built-in model
BimberLab · Dec 20, 2024 · 946f095 · 946f095
1 parent 4de8cb2
commit 946f095
Showing 1 changed file with 6 additions and 3 deletions.
diff --git a/R/CellTypist.R b/R/CellTypist.R
@@ -448,7 +448,8 @@ Classify_TNK <- function(seuratObj, assayName = Seurat::DefaultAssay(seuratObj),
          minFractionToInclude = minFractionToInclude,
          minCellsToRun = minCellsToRun,
          maxBatchSize = maxBatchSize,
-         retainProbabilityMatrix = retainProbabilityMatrix
+         retainProbabilityMatrix = retainProbabilityMatrix,
+         runCelltypistUpdate = FALSE
   )
 
   # Limit the resulting calls to just RIRA T/NK cells:
@@ -488,7 +489,8 @@ Classify_Myeloid <- function(seuratObj, assayName = Seurat::DefaultAssay(seuratO
                        minFractionToInclude = minFractionToInclude,
                        minCellsToRun = minCellsToRun,
                        maxBatchSize = maxBatchSize,
-                       retainProbabilityMatrix = retainProbabilityMatrix
+                       retainProbabilityMatrix = retainProbabilityMatrix,
+                       runCelltypistUpdate = FALSE
   )
 
   fn2 <- paste0(columnPrefix, 'cellclass')
@@ -544,7 +546,8 @@ Classify_ImmuneCells <- function(seuratObj, assayName = Seurat::DefaultAssay(seu
                        minFractionToInclude = minFractionToInclude,
                        minCellsToRun = minCellsToRun,
                        maxBatchSize = maxBatchSize,
-                       retainProbabilityMatrix = retainProbabilityMatrix
+                       retainProbabilityMatrix = retainProbabilityMatrix,
+                       runCelltypistUpdate = FALSE
   )
 
   # Create a simplified final column: