Steele Farnsworth

Hello, are you referring to the CRF learner itself, or either of the CRF layers in the BiLSTM and BERT? If the former, we are using the sklearn's CRF implementation...

They both use the CRF implemented in [pytorch-crf](https://pytorch-crf.readthedocs.io/en/stable/#torchcrf.CRF). Does it appear to natively support what you are trying to do?

I am not sure. If you create or obtain a torch-compatible CRF implementation that does what you need, I may be able to discuss with you how to use it...

None of the CRFs used in medaCy are implemented within medaCy, so the only changes one would make to medaCy code would be replacing the CRF implementations imported from its...

We have not yet investigated what it would take to make medaCy compatible with the latest versions of its dependencies.

That model is trained on the n2c2 2018 track 2 dataset, which is described [here](https://portal.dbmi.hms.harvard.edu/projects/n2c2-nlp/). One can then train a model over it using the [command line interface](https://github.com/NLPatVCU/medaCy/blob/master/guide/command_line_interface.md). Updating the...

@plandes It sounds like you put a lot of work into adapting medaCy for your needs, and I really appreciate that you've clearly documented the workflow that you used. Am...

@plandes, I am graduating at the end of this semester and I don't know if I will be able to review any changes to the package before then, though I...

Thank you for bringing this to our attention; PR #209 will solve this.

MedaCy reads files in the [BRAT format](https://brat.nlplab.org/standoff.html). There's only one model online currently, namely [clinical notes](https://github.com/NLPatVCU/medaCy_model_clinical_notes). However we do have other datasets available with different entity types. What types of...