search

antadde / N-SDM

Nested-Species Distribution Modelling
MIT License
26 stars 1 forks source link

Use of workflow manager #5

Open simonrolph opened 1 year ago

simonrolph commented 1 year ago

This is more of a question than an issue but in bioinformatics there's growing momentum behind the use of workflow managers to run pipelines like you're got here. Here are some examples:

Wondered if you had considered using any of these tools to aid reproducible deployment of the N-SDM workflow? I'd be interesting to hear your thoughts on whether you think it would be worth it.

Here's an example of an SDM on the Galaxy workflow platform https://training.galaxyproject.org/training-material/topics/ecology/tutorials/species-distribution-modeling/tutorial.html but I think Galaxy is a bit more GUI-orientated than snakemake/nextflow

antadde commented 1 year ago

Hi Simon! It's not a move we anticipate making in the short term (there are so many things we would like to do but lack the time). But I think there is indeed a lot of potential behind these tools, especially regarding the scalability dimension (hpc clusters --> everyone computers). It would surely increase the democratisation of tools like NSDM and the dissemination of the best practices that we have tried to include in it to more people.