Update README.md

README.md

@@ -1,2 +1,12 @@
 # blastp_on_cluster
 Script to run the BLAST step included in OrthoFinder on a cluster (OGE)
+
+## How it works
+
+You need to run OrthoFinder using the **-op** option, to **only prepare** the blast files. At the end it will output the commands required and print them on the screen. This script will catch those commands and submit them as multi-threaded blast jobs.
+
+As such the clusters scheduler and queue is used, which is much more efficient than the one included in OrthoFinder. Also this allows the BLAST to run on multiple machines simultaniously.
+
+## Usage
+
+    orthofinder.py -f <FASTA_DIR> -op | python3 blast_on_cluster.py