diff --git a/README.md b/README.md
index 1202ded1f4a006b67d81adac20e14ac6af97110a..3f79f79150bf0d0e4c04e03cfe783fee9f4f0661 100644
--- a/README.md
+++ b/README.md
@@ -73,7 +73,7 @@ or download the GTDB r214 sketched database skani-gtdb-r214-sketch-v0.2 (23 GB c
 ````
 wget https://storage.googleapis.com/skani_files/skani-gtdb-r214-sketch-v0.2.tar.gz`
 ````
-When your database is installed you need to changed the path to the database in the Snakefile **snakemake/illumina-bacterial-assembly-snakemake/Snakefile** at line 152. 
+When your database is installed you need to changed the path to the database in the Snakefile **snakemake/illumina-bacterial-assembly-snakemake/Snakefile** at line 144. 
 
 Now the snakemake enviroment is ready for use with the pipeline. 
 ## Executing the Illumina pipeline 
@@ -116,9 +116,9 @@ This will give you an overview of all the steps in the pipeline.
 
 If you want to execute the pipeline and your samples are placed in the **data/samples** directory, you can use the following command: 
 ````
-snakemake -j 24
+snakemake --use-conda --cores 24
 ````
-The -j option defines the number of treads that will be used to perform the pipeline. Snakemake will distribute jobs to efficiently use all resources it gets.
+The --cores option defines the number of treads that will be used to perform the pipeline. Snakemake will distribute jobs to efficiently use all resources it gets.
 
 ### Pipeline content
 The pipeline has eight big steps and some side steps to make summaries and visualisations.