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Quick start

  1. Install nextflow and Docker. Check with nextflow run hello and docker images to make sure both are functional.
  2. Download exemplar data. E.g., nextflow run labsyspharm/mcmicro/exemplar.nf --name exemplar-001 --path . to download to current directory.
  3. Run mcmicro on the exemplars. E.g., nextflow pull labsyspharm/mcmicro followed by nextflow run labsyspharm/mcmicro --in exemplar-001 to execute in current directory.

On an average workstation, it takes approximately 5-10 minutes to process exemplar-001 from start to finish. Exemplar-002 is substantially larger, and its processing takes 30-40 minutes on an average workstation.


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