Repeated runs of the same data will give different results

Repeated runs of the same data will give different results.
I have run the same data three times, but the results were different, including root age, root country and evolutionary rate. Could you tell me how can I get a stable and credible result?

Hi @GenLi,

I assume you are referring to the output of augur refine. This documentation page may help, notably the --seed parameter which should help with reproducibility of results.

If you are using a pre-defined pathogen workflow (e.g. SARS-CoV-2 workflow), note that not all Augur parameters are available as Snakemake parameters, and the workflow file may have to be modified.

Best,
Victor