From 377fd160da92c0575750db4af2dfdcd0e8b9e3cf Mon Sep 17 00:00:00 2001
From: Luke Zappia <lazappi@users.noreply.github.com>
Date: Mon, 20 Jan 2025 13:04:36 +0100
Subject: [PATCH] Adjust features filter in scPRINT (#36)

---
 src/methods/scprint/script.py | 3 +--
 1 file changed, 1 insertion(+), 2 deletions(-)

diff --git a/src/methods/scprint/script.py b/src/methods/scprint/script.py
index deb0bd00..e76d6f39 100644
--- a/src/methods/scprint/script.py
+++ b/src/methods/scprint/script.py
@@ -41,8 +41,7 @@
 
 print("\n>>> Preprocessing data...", flush=True)
 preprocessor = Preprocessor(
-    # Lower this threshold for test datasets
-    min_valid_genes_id=1000 if input.n_vars < 2000 else 10000,
+    min_valid_genes_id=min(0.9 * adata.n_vars, 10000), # 90% of features up to 10,000
     # Turn off cell filtering to return results for all cells
     filter_cell_by_counts=False,
     min_nnz_genes=False,