From e15d5649b3a98aa39b0d8c095f4f9a44c99e4acd Mon Sep 17 00:00:00 2001
From: zsloan
Date: Sat, 20 Aug 2022 19:20:20 +0000
Subject: Divide GEMMA additive effect by 2

---
 wqflask/wqflask/marker_regression/gemma_mapping.py | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

(limited to 'wqflask')

diff --git a/wqflask/wqflask/marker_regression/gemma_mapping.py b/wqflask/wqflask/marker_regression/gemma_mapping.py
index ec12f9b7..6b525733 100644
--- a/wqflask/wqflask/marker_regression/gemma_mapping.py
+++ b/wqflask/wqflask/marker_regression/gemma_mapping.py
@@ -220,7 +220,7 @@ def parse_loco_output(this_dataset, gwa_output_filename, loco="True"):
                         marker['chr'] = line.split("\t")[0]
                     marker['Mb'] = float(line.split("\t")[2]) / 1000000
                     marker['p_value'] = float(line.split("\t")[10])
-                    marker['additive'] = -(float(line.split("\t")[7]))
+                    marker['additive'] = -(float(line.split("\t")[7])/2)
                     if math.isnan(marker['p_value']) or (marker['p_value'] <= 0):
                         marker['lod_score'] = 0
                     else:
-- 
cgit v1.2.3