From 0c0269cfaf314840ebbe9314c27d232d74448cd3 Mon Sep 17 00:00:00 2001
From: Usman Rashid <usman@smme.edu.pk>
Date: Mon, 30 Sep 2024 11:54:26 +1300
Subject: [PATCH] Added PFR instructions

---
 README.md | 8 ++++++++
 1 file changed, 8 insertions(+)

diff --git a/README.md b/README.md
index 91ee585..75947db 100644
--- a/README.md
+++ b/README.md
@@ -65,6 +65,14 @@ nextflow run plant-food-research-open/genepal \
 > Please provide pipeline parameters via the CLI or Nextflow `-params-file` option. Custom config files including those provided by the `-c` Nextflow option can be used to provide any configuration _**except for parameters**_;
 > see [docs](https://nf-co.re/usage/configuration#custom-configuration-files).
 
+### Plant&Food Users
+
+Download the pipeline to your `/workspace/$USER` folder. Change the parameters defined in the [pfr/params.json](./pfr/params.json) file. Submit the pipeline to SLURM for execution.
+
+```bash
+sbatch ./pfr_genepal
+```
+
 ## Credits
 
 plant-food-research-open/genepal workflows were originally scripted by Jason Shiller ([@jasonshiller](https://github.com/jasonshiller)). Usman Rashid ([@gallvp](https://github.com/gallvp)) wrote the Nextflow pipeline.