GitHub - tapanr25/CS-769-NLP: Assignments & project work for CS 769 at UW Madison

To run the base EsmForSequenceClassification for the TCR-peptide dataset, run esm_stapler.py

To run the Dual-ESM based architecture for the TCR-peptide dataset, run run_mm_netcr.py

The Dual-ESM based architecture is in mmesm.py

For data analysis and visualizations run the jupyter notebooks.

Name		Name	Last commit message	Last commit date
Latest commit History 10 Commits
tcrB_dataset		tcrB_dataset
tmp/stapler_esm2_t6_8M_UR50D_0_epv1/checkpoint-12126		tmp/stapler_esm2_t6_8M_UR50D_0_epv1/checkpoint-12126
EDA.ipynb		EDA.ipynb
EDA_updated.ipynb		EDA_updated.ipynb
ESM_visualization.ipynb		ESM_visualization.ipynb
README.md		README.md
esm_stapler.py		esm_stapler.py
evaluate.ipynb		evaluate.ipynb
mmesm.py		mmesm.py
run_mm_netcr.py		run_mm_netcr.py
test.ipynb		test.ipynb
train-set_full-seq.csv		train-set_full-seq.csv
vdjdb_external_negatives_data.csv		vdjdb_external_negatives_data.csv

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