added argparse part

scripts/argparse_example.py

+import argparse
+
+if __name__ == '__main__':
+    parser = argparse.ArgumentParser(
+        description="transcript sampler",
+        formatter_class=argparse.ArgumentDefaultsHelpFormatter
+    )
+    parser.add_argument("--annotation", required=True, help="gtf file with genome annotation")
+    parser.add_argument("--expression_level", required=True, help="csv file with expression level")
+    parser.add_argument("--output_csv", required=True, help="output csv file")
+    parser.add_argument("--output_gtf", required=True, help="output gtf file")
+    parser.add_argument("--transcript_number", required=True, help="total number of transcripts to sample")
+    args = parser.parse_args()
+
+
+
+# script name being whatever we call our workflow class/function that takes the inputs
+    script_name(args.annotation, args.expression_level, args.output_csv, args.output_gtf, args.transcript_number)
+
+
+"""note:
+so to run our entire workflow, it will suffice to type the following into the command line:
+        python filename.py \
+            --annotation filename1.gtf \
+            --expression_level filename2.gtf \
+            --output_csv output1.csv \
+            --output_gtf output2.gtf \
+            --transcript_number 100 (some number)
+
+
+"""
\ No newline at end of file