From fee748220f4149a4ecccb8e8cc7cdba21374f2d0 Mon Sep 17 00:00:00 2001
From: "hanna.julienne" <hanna.julienne@pasteur.fr>
Date: Tue, 12 Jan 2021 13:03:54 +0100
Subject: [PATCH] put inf as ld_score  value for typed snps

---
 raiss/windows.py | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/raiss/windows.py b/raiss/windows.py
index 1b0ebd8..b0257e8 100644
--- a/raiss/windows.py
+++ b/raiss/windows.py
@@ -72,7 +72,7 @@ def prepare_zscore_for_imputation(ref_panel, zscore):
     zscore = realigned_zfiles_on_panel(ref_panel, zscore)
     zscore['Var'] = -1.0
     zscore['Nsnp_to_impute'] = -1
-    zscore['ld_score'] = -1.0
+    zscore['ld_score'] = np.inf
     #zscore = zscore.loc[zscore.index.intersection(ref_panel.index)]
     return zscore
 
-- 
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