pgx-main from prod added

pgx-main/tests/simulations/sim_zygosity.py

@@ -0,0 +1,32 @@
+#!/usr/bin/env python
+
+
+# Script: sim_zygosity.py
+# Author: David Twesigomwe
+# Date modified: 15-Dec-2020
+# Purpose: This script simulates the zygosity of variants after concatenating 2 haplotype VCF files.
+# Usage: python3 sim_zygosity.py in_database.txt > output.txt
+
+import os
+import sys
+
+in_file = sys.argv[1]
+
+f = open (in_file, "r")
+
+
+for line in f:
+    list1 = line.strip().split(";")
+    new_list = []
+    for i in list1:
+        x = i + '~0/1'
+        y = i + '~1/1'
+        if x not in new_list:
+            new_list.append(x)
+            
+        else:
+            new_list = list(map(lambda st: str.replace(st, x, y), new_list))
+
+    print(";".join(new_list))
+
+f.close()