Request: add a toy model setup about genocae HOT 3 CLOSED

Hey

I have now added a model M0 on the master branch that is faster to train than the previous models. Running a command to train 1 epoch takes ~10s on my laptop with it, so hopefully it will speed things up a little. The model isn't really a 'smallest possible' and could be scaled down more, but since the majority of the time is spent on loading and preprocessing the data, I don't think a smaller one would matter so much for total runtime at this point.

We are working on speeding up the data loading process, hopefully that feature will be added soon.

I can have a look at making a p0 model soon as well.

Best,
K

from genocae.

@kausmees that is great, thanks so much, I will try it out soon!

but since the majority of the time is spent on loading and preprocessing the data

Would that be true for a simulated dataset of 3 individuals with 1 SNP and phenotype as well? Those are what I use for testing :-)

from genocae.

@kausmees that new model is great! It brought a full GitHub Actions test run to 3 minutes!

Happily closing this Issue 👍

from genocae.