Add option to specify number of replicates when downloading references

nf-core / pathogensurveillance

Surveillance of pathogens using population genomics and sequencing

https://nf-co.re/pathogensurveillance

MIT License

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Add option to specify number of replicates when downloading references #115

Open zachary-foster opened 1 week ago

zachary-foster commented 1 week ago

This would be a change to pick_assemblies.R. Currently, only one reference is chosen to represent each taxon. Existing options control the maximum number of taxa considered.