removed scaling from cytovi

Author: ghar1821

src/methods/cytovi/script.py

@@ -34,30 +34,22 @@
 
 adata_to_correct = adata[:, markers_to_correct].copy()
 
-print("Scaling data", flush=True)
-
-# scale data. this will add a layer "scaled" to the anndata
-cytovi.pp.scale(
-    adata=adata_to_correct,
-    transformed_layer_key="preprocessed",
-    batch_key="batch_str",
-    inplace=True,
-)
-
 print(
     f"Train CytoVI on {adata_to_correct.shape[0]} cells",
     flush=True,
 )
 
 cytovi.CytoVI.setup_anndata(
-    adata_to_correct, layer="scaled", batch_key="batch_str", sample_key="sample_key_str"
+    adata_to_correct,
+    layer="preprocessed",
+    batch_key="batch_str",
+    sample_key="sample_key_str",
 )
 
 model = cytovi.CytoVI(
     adata_to_correct, n_hidden=par["n_hidden"], n_layers=par["n_layers"]
 )
 
-
 print("Start training CytoVI model", flush=True)
 model.train()