Update README wording

PathoGenOmics-Lab · Oct 20, 2023 · fb4a885 · fb4a885
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diff --git a/README.md b/README.md
@@ -22,8 +22,12 @@ and [configuring the inputs and outputs](config/README.md#inputs-and-outputs):
 snakemake --use-conda -c4  # runs VIPERA on 4 cores (reccomended)
 ```
 
-Alternatively, you can use a simple script ([`run_default_VIPERA.sh`](run_default_VIPERA.sh))
-that downloads the data from our study and performs the analysis in one step.
+Alternatively, you can use a simple script that downloads the data from our study
+and performs the analysis in one step:
+
+```shell
+./run_default_VIPERA.sh
+```
 
 This Snakemake workflow can be also [executed in an HPC environment](config/README.md#run-modes).
 

diff --git a/config/README.md b/config/README.md
@@ -111,5 +111,5 @@ To run the analysis in an HPC environment using SLURM, we provide a
 to your needs, or used directly by running the following command:
 
 ```shell
-snakemake --slurm --use-conda --profile profile/default
+snakemake --use-conda --slurm --profile profile/default
 ```