acl-medi-chat-summarization

This repository contains code for MEDIQA-Chat 2023 @ ACL-ClinicalNLP

Title - HealthMavericks@MEDIQA-Chat 2023: Benchmarking different Transformer based models for Clinical Dialogue Summarization

Authors - Kunal Suri, Atul Singh, Saumajit Saha

Submitted to ACL-ClinicalNLP 2023

Name		Name	Last commit message	Last commit date
TaskA		TaskA
TaskB		TaskB
mediqa-chat-data		mediqa-chat-data
.gitignore		.gitignore
Dockerfile		Dockerfile
LICENSE		LICENSE
README.md		README.md
Task A - EDA.ipynb		Task A - EDA.ipynb
Task A - Section Header Multi Class Classification - Focal Loss.py		Task A - Section Header Multi Class Classification - Focal Loss.py
Task A - Section Header Multi Class Classification.py		Task A - Section Header Multi Class Classification.py
Task A - Section Header Multi Label Classification - Focal Loss.py		Task A - Section Header Multi Label Classification - Focal Loss.py
Task A - Section Header Multi Label Classification.py		Task A - Section Header Multi Label Classification.py
Task A - Summarization - LED.py		Task A - Summarization - LED.py
Task A - Summarization.py		Task A - Summarization.py
TaskA - Decoding - EDA.py		TaskA - Decoding - EDA.py
TaskA - Metric Optimization - Beam Search.ipynb		TaskA - Metric Optimization - Beam Search.ipynb
TaskA - Metric Optimization - Beam Search.py		TaskA - Metric Optimization - Beam Search.py
TaskA - Metric Optimization - Contrastive Search.ipynb		TaskA - Metric Optimization - Contrastive Search.ipynb
TaskA - Metric Optimization - Contrastive Search.py		TaskA - Metric Optimization - Contrastive Search.py
TaskA - Summarization - OpenAI.py		TaskA - Summarization - OpenAI.py
TaskA-idx2label.json		TaskA-idx2label.json
TaskA-label2idx.json		TaskA-label2idx.json
TaskA_calculate_metrics.sh		TaskA_calculate_metrics.sh
TaskB - Attribution - Notebook.ipynb		TaskB - Attribution - Notebook.ipynb
TaskB - Attribution.py		TaskB - Attribution.py
TaskB - Decoding - EDA.py		TaskB - Decoding - EDA.py
TaskB - Metric Optimization - Beam Search.py		TaskB - Metric Optimization - Beam Search.py
TaskB - Summarization - EDA.ipynb		TaskB - Summarization - EDA.ipynb
TaskB - Summarization - Model Pipeline.py		TaskB - Summarization - Model Pipeline.py
TaskB - Summarization - OpenAI.py		TaskB - Summarization - OpenAI.py
TaskB_Decoding_with_best_summary_run1.py		TaskB_Decoding_with_best_summary_run1.py
TaskB_Decoding_with_faithfullness_run3.py		TaskB_Decoding_with_faithfullness_run3.py
TaskB_Decoding_with_openai_only_run2.py		TaskB_Decoding_with_openai_only_run2.py
calculate_metrics.sh		calculate_metrics.sh
config.py		config.py
evaluate_summarization.py		evaluate_summarization.py
losses.py		losses.py
requirements.txt		requirements.txt
sectiontagger.py		sectiontagger.py
taskA_HealthMavericks_run1.csv		taskA_HealthMavericks_run1.csv
taskA_HealthMavericks_run2.csv		taskA_HealthMavericks_run2.csv
taskA_HealthMavericks_run3.csv		taskA_HealthMavericks_run3.csv
taskA_decoding_using_best_summary_run2.py		taskA_decoding_using_best_summary_run2.py
taskA_decoding_using_faithfullness_run1.py		taskA_decoding_using_faithfullness_run1.py
taskA_decoding_using_openai_only_run3.py		taskA_decoding_using_openai_only_run3.py
taskB_HealthMavericks_run1.csv		taskB_HealthMavericks_run1.csv
taskB_HealthMavericks_run2.csv		taskB_HealthMavericks_run2.csv
taskB_HealthMavericks_run3.csv		taskB_HealthMavericks_run3.csv
taska_summary_configuration_max.json		taska_summary_configuration_max.json
taskb_summary_configuration_max.json		taskb_summary_configuration_max.json
taskb_summary_configuration_runtime.json		taskb_summary_configuration_runtime.json
threshold_0.json		threshold_0.json
threshold_1.json		threshold_1.json
threshold_2.json		threshold_2.json
threshold_3.json		threshold_3.json
threshold_4.json		threshold_4.json
transformer_classifier.py		transformer_classifier.py

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