diff --git a/README.md b/README.md
index 6ea7f8f62733cd3984b836df404567f98a491236..dd4dc3f3aedcd58d2b074e97b092c707ab9fbe96 100644
--- a/README.md
+++ b/README.md
@@ -9,4 +9,4 @@ This workflow takes as input:
  
  The workflow can be run via the command line as
  
- python scripts/exe.py --annotation {gtf input file} --output_csv {output csv file} --transcript_number {number of transcripts} --output_gtf {output gtf file} --input_csv {input csv file}
+ python scripts/new-exe.py --annotation {gtf input file} --output_csv {output csv file} --transcript_number {number of transcripts} --output_gtf {output gtf file} --input_csv {input csv file}