diff --git a/docs/usage.md b/docs/usage.md index 9872ac0..370d9aa 100644 --- a/docs/usage.md +++ b/docs/usage.md @@ -15,7 +15,7 @@ NXF_OPTS='-Xms1g -Xmx4g' The typical command for running the pipeline is as follows: ```bash -nextflow run maxibor/coproid --genome1 'GRCh37' --genome2 'CanFam3.1' --name1 'Homo_sapiens' --name2 'Canis_familiaris' --reads '*_R{1,2}.fastq.gz' --krakendb 'path/to/minikraken_db' -profile docker +nextflow run nf-core/coproid --genome1 'GRCh37' --genome2 'CanFam3.1' --name1 'Homo_sapiens' --name2 'Canis_familiaris' --reads '*_R{1,2}.fastq.gz' --krakendb 'path/to/minikraken_db' -profile docker ``` This will launch the pipeline with the `docker` configuration profile. See below for more information about profiles.