Added file that will convert genofiles to plink ped/map files

1 files changed, 22 insertions, 0 deletions

diff --git a/wqflask/wqflask/my_pylmm/data/geno_to_ped.py b/wqflask/wqflask/my_pylmm/data/geno_to_ped.py
new file mode 100644
index 00000000..9091ad9a
--- /dev/null
+++ b/wqflask/wqflask/my_pylmm/data/geno_to_ped.py
@@ -0,0 +1,22 @@
+from __future__ import absolute_import, division, print_function
+
+import csv
+
+class ConvertToPed(object):
+
+    def __init__(self, input_file, output_file):
+        self.input_file = input_file
+        self.output_file = output_file
+        
+    def convert(self):
+    
+        self.haplotype_notation = {
+        '@mat': "1",
+        '@pat': "0",
+        '@het': "0.5",
+        '@unk': "NA"
+        }
+        
+        with open(self.output_file, "w") as self.output_fh:
+            self.process_csv()
+        
\ No newline at end of file