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Update README.md
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peterk87 committed Nov 1, 2023
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Expand Up @@ -33,12 +33,14 @@ After reference sequence selection, the pipeline performs read mapping to each r
3. Download the pipeline and test it on a minimal dataset with a single command:

For Illumina workflow test:

```bash
nextflow run CFIA-NCFAD/nf-flu -profile test_illumina,<docker/singularity/podman/shifter/charliecloud/conda> \
--max_cpus $(nproc) # use all available CPUs; default is 2
```

For Nanopore workflow test:

```bash
nextflow run CFIA-NCFAD/nf-flu -profile test_nanopore,<docker/singularity/podman/shifter/charliecloud/conda> \
--max_cpus $(nproc) # use all available CPUs; default is 2
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