dummy script

scripts/stringtie2utr.py

@@ -0,0 +1,21 @@
+#!/usr/bin/env python3
+
+import argparse
+
+def main():
+    parser = argparse.ArgumentParser(description="Updates BRAKER gene models with UTRs from a StringTie assembly.")
+
+    # Mandatory input arguments
+    parser.add_argument("-b", "--braker", required=True, help="File with BRAKER gene models in GTF format")
+    parser.add_argument("-s", "--stringtie", required=True, help="File with StringTie transcript models in GFF format")
+
+    args = parser.parse_args()
+
+    # Now you can access the input file paths using args.braker and args.stringtie
+    braker_file = args.braker
+    stringtie_file = args.stringtie
+
+    # Add your code here to process the input files and perform the desired actions
+
+if __name__ == "__main__":
+    main()