From 704df5e1a4b908edbdc3d7cb6d309889a230b1c9 Mon Sep 17 00:00:00 2001
From: "tobias.neumann" <tobias.neumann.at@gmail.com>
Date: Fri, 8 Feb 2019 21:47:22 +0100
Subject: [PATCH] Bugfix: Reverse strand A->G SNP coordinates.

---
 slamdunk/utils/SNPtools.py | 3 ++-
 1 file changed, 2 insertions(+), 1 deletion(-)

diff --git a/slamdunk/utils/SNPtools.py b/slamdunk/utils/SNPtools.py
index 10d59c2..0ba4778 100644
--- a/slamdunk/utils/SNPtools.py
+++ b/slamdunk/utils/SNPtools.py
@@ -28,12 +28,13 @@ def __init__(self, vcfFile):
         self._agSNPs = {}
 
     def _addSNP(self, snp):
+
         if(snp[3].upper() == "T" and snp[4].upper() == "C"):
             key = snp[0] + snp[1]
             self._tcSNPs[key] = True
         
         if(snp[3].upper() == "A" and snp[4].upper() == "G"):
-            key = snp[0] + str(int(snp[1]) - 1)
+            key = snp[0] + snp[1]
             self._agSNPs[key] = True
         
     def read(self):