The official start-up code for paper "FFA-IR: Towards an Explainable and Reliable Medical Report Generation Benchmark."

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Deep Learning FFA-IR
Overview

FFA-IR

The official start-up code for paper "FFA-IR: Towards an Explainable and Reliable Medical Report Generation Benchmark."

The framework is inherited from R2Gen.

Data

Our dataset, including all FFA images and annotation files, is available on PhysioNet.

To extract all the files, please first download all the files in FFAIR, and use the command "cat FAIR.tar.gz.* | tar -zxv". Then the name of each directory refers to the case ID, and all the FFA images are provided.

Please put the data and annotation files in 'code/data' directory. Or you can change the code in main.py to fit your own condition.

Requirements

  • torch==1.5.1
  • torchvision==0.6.1
  • opencv-python==4.4.0.42

Training

You can directly run our code by the following:

python main.py

Contact

If you are interested in this dataset or have any questions, please connect us: [email protected].

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Comments
  • Missing file ''lesion_dict.json

    Missing file ''lesion_dict.json"

    Dear Mingjie:

    Thanks for your carefully prepared dataset.

    However, I find an important file lost:

    lesion_dict.json: This file contains a dict to explain the index of each lesion in lesion_info.json. For each key-value pair, the key is the index of the lesion, the value provides both Chinese and English names of this lesion.

    It is shown in the description, but not included in the zip.

    opened by munanning 2
  • File not found fair_annotation.csv' in downloaded dataset

    File not found fair_annotation.csv' in downloaded dataset

    FileNotFoundError: [Errno 2] No such file or directory: '/DATA/datasets/ffa-ir/fair_annotation.csv'

    However ffair_annotation.json is present in downloaded data.

    opened by njan-creative 1
Owner
Mingjie
Ph.D. Candidate in Monash University
Mingjie
GitHub
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