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HazyResearch / ukb-cardiac-mri

Weakly Supervised MRI Series Classification for the UK Biobank
Apache License 2.0
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Dataset used in WeakSupervised.sh #1

Closed matteopariset closed 5 years ago

matteopariset commented 5 years ago

I'm trying to run the WeakSupervised.sh script but I don't fully understand what data should be used (for example in SEMI parameter in scaleup_base.sh) and where I can find the file ANON_unknown_hack3_gender.csv Thanks in advance

jason-fries commented 5 years ago

Hi @matteopariset,

Sorry for the confusion -- those scripts largely deal with our internal workflow and require access to the full UK Biobank dataset. As such they're not really meant for public use.

The weak supervision part of the paper is covered in these two Jupyter notebooks . We've also provided a demo of our end model (CNN-LSTM) that uses labeled MRI data here.

We're in the process of putting together a new end-to-end demo that should be easier to use and is built using our upcoming Snorkel v0.9 release. That should come online by the end of August.

Thanks for the interest!

matteopariset commented 5 years ago

Thank you for the very fast reply. I look forward to trying out the new material