Skip to content

Commit

Permalink
Update README.md
Browse files Browse the repository at this point in the history
  • Loading branch information
@chaoyi-wu
chaoyi-wu authored Nov 10, 2024
1 parent ce61a67 commit ef888a7
Showing 1 changed file with 31 additions and 1 deletion.
32 changes: 31 additions & 1 deletion README.md
View file
Original file line number Diff line number Diff line change
Expand Up @@ -53,7 +53,7 @@ Some cases produced by our final model:
<img src="https://github.com/chaoyi-wu/RadFM/blob/main/Images/result_rationale.jpg"/>

## Dataset-Links:
MedKD Dataset downloading URL:
Datasets downloading URL:

| Dataset Name | Link | Access |
|--------------|------|--------|
Expand All @@ -80,6 +80,36 @@ MedKD Dataset downloading URL:
| RSNA| https://www.rsna.org/education/ai-resources-and-training/ai-image-challenge/rsna-pneumonia-detection-challenge-2018| Open Access |
| SIIM-ACR | https://www.kaggle.com/datasets/jesperdramsch/siim-acr-pneumothorax-segmentation-data| Open Access |

The split of each dataset can be found in https://huggingface.co/datasets/chaoyi-wu/RadFM_data_csv you just need to download the image part from each datasets.

## Dataset Code and Files Linking:
MedKD Dataset downloading URL:

| Dataset Name | Process Dataset Code | Related Filename |
|--------------|------|--------|
| Rad3D-series | [jpg2nii Process Code](https://github.com/chaoyi-wu/RadFM/blob/main/src/Dataset/dataset/jpg2nii_data_convert.py), [nii2npy Process Code](https://github.com/chaoyi-wu/RadFM/blob/main/src/Dataset/dataset/nii2npy_for_radiopaedio.py), [Final Datset to Read npy and Related Texts](https://github.com/chaoyi-wu/RadFM/blob/main/src/Dataset/dataset/radiopaedia.py) | radiology_article_npy_train/test.json |
| MPx-series | [MedPix Dataset](https://github.com/chaoyi-wu/RadFM/blob/main/src/Dataset/dataset/MedPix_dataset.py) | MedPix_muli_train/test.csv, MedPix_single_train/test.csv|
| PMC-Inline | [Paper-inline Dataset](https://github.com/chaoyi-wu/RadFM/blob/main/src/Dataset/dataset/paper_inline.py) | paper_train.csv (This dataset is not used for evaluation) |
| PMC-CaseReport | [Case-report Dataset](https://github.com/chaoyi-wu/RadFM/blob/main/src/Dataset/dataset/case_report.py) | filtered_case_report_train/test.csv |
| VinDr-Mammo | [Diagnosis Open Format Dataset](https://github.com/chaoyi-wu/RadFM/blob/main/src/Dataset/dataset/chestxray.py), [Diagnosis Close (yes/no) Format Dataset](https://github.com/chaoyi-wu/RadFM/blob/main/src/Dataset/dataset/binary.py) | mammo_balance_train/test.csv |
| VinDr-SpineXR | [Diagnosis Open Format Dataset](https://github.com/chaoyi-wu/RadFM/blob/main/src/Dataset/dataset/chestxray.py), [Diagnosis Close (yes/no) Format Dataset](https://github.com/chaoyi-wu/RadFM/blob/main/src/Dataset/dataset/binary.py) | spinexr_balance_train/test.csv |
| VinDr-PCXR | [Diagnosis Open Format Dataset](https://github.com/chaoyi-wu/RadFM/blob/main/src/Dataset/dataset/chestxray.py), [Diagnosis Close (yes/no) Format Dataset](https://github.com/chaoyi-wu/RadFM/blob/main/src/Dataset/dataset/binary.py) | pcxr_balance_train/test.csv |
| PMC-OA | [Pmcoa Dataset](https://github.com/chaoyi-wu/RadFM/blob/main/src/Dataset/dataset/pmcoa.py) | pmcoa_image_caption_train/test.csv |
| PMC-VQA | [vqa Dataset](https://github.com/chaoyi-wu/RadFM/blob/main/src/Dataset/dataset/vqa.py) | pmcvaq_train/test.csv|
| VQA-RAD | [vqa Dataset](https://github.com/chaoyi-wu/RadFM/blob/main/src/Dataset/dataset/vqa.py)| vqarad_train/test.csv |
| SLAKE | [vqa Dataset](https://github.com/chaoyi-wu/RadFM/blob/main/src/Dataset/dataset/vqa.py) | slakevqa_train/test.csv |
| MIMIC-CXR | [CXR Open Captioning Dataset](https://github.com/chaoyi-wu/RadFM/blob/main/src/Dataset/dataset/chestxray.py) | mimic_caption_train/test.csv |
| VinDr-CXR | [Diagnosis Open Format Dataset](https://github.com/chaoyi-wu/RadFM/blob/main/src/Dataset/dataset/chestxray.py), [Diagnosis Close (yes/no) Format Dataset](https://github.com/chaoyi-wu/RadFM/blob/main/src/Dataset/dataset/binary.py) | chestxray_balance_train_new.csv, chestxray_balance_test.csv|
| NIH ChestXray14 | [Diagnosis Open Format Dataset](https://github.com/chaoyi-wu/RadFM/blob/main/src/Dataset/dataset/chestxray.py), [Diagnosis Close (yes/no) Format Dataset](https://github.com/chaoyi-wu/RadFM/blob/main/src/Dataset/dataset/binary.py) | chestxray_balance_train_new.csv, chestxray_balance_test.csv |
| CheXpert | [Diagnosis Open Format Dataset](https://github.com/chaoyi-wu/RadFM/blob/main/src/Dataset/dataset/chestxray.py), [Diagnosis Close (yes/no) Format Dataset](https://github.com/chaoyi-wu/RadFM/blob/main/src/Dataset/dataset/binary.py) | chestxray_balance_train_new.csv, chestxray_balance_test.csv |
| Covid-CXR2 | [Diagnosis Open Format Dataset](https://github.com/chaoyi-wu/RadFM/blob/main/src/Dataset/dataset/chestxray.py), [Diagnosis Close (yes/no) Format Dataset](https://github.com/chaoyi-wu/RadFM/blob/main/src/Dataset/dataset/binary.py) | chestxray_balance_train_new.csv, chestxray_balance_test.csv |
| NLM-TB | [Diagnosis Open Format Dataset](https://github.com/chaoyi-wu/RadFM/blob/main/src/Dataset/dataset/chestxray.py), [Diagnosis Close (yes/no) Format Dataset](https://github.com/chaoyi-wu/RadFM/blob/main/src/Dataset/dataset/binary.py) | chestxray_balance_train_new.csv, chestxray_balance_test.csv |
| Object-CXR | [Diagnosis Open Format Dataset](https://github.com/chaoyi-wu/RadFM/blob/main/src/Dataset/dataset/chestxray.py), [Diagnosis Close (yes/no) Format Dataset](https://github.com/chaoyi-wu/RadFM/blob/main/src/Dataset/dataset/binary.py) | chestxray_balance_train_new.csv, chestxray_balance_test.csv |
| OpenI | [Diagnosis Open Format Dataset](https://github.com/chaoyi-wu/RadFM/blob/main/src/Dataset/dataset/chestxray.py), [Diagnosis Close (yes/no) Format Dataset](https://github.com/chaoyi-wu/RadFM/blob/main/src/Dataset/dataset/binary.py) | chestxray_balance_train_new.csv, chestxray_balance_test.csv |
| RSNA| [Diagnosis Open Format Dataset](https://github.com/chaoyi-wu/RadFM/blob/main/src/Dataset/dataset/chestxray.py), [Diagnosis Close (yes/no) Format Dataset](https://github.com/chaoyi-wu/RadFM/blob/main/src/Dataset/dataset/binary.py)| chestxray_balance_train_new.csv, chestxray_balance_test.csv |
| SIIM-ACR | [Diagnosis Open Format Dataset](https://github.com/chaoyi-wu/RadFM/blob/main/src/Dataset/dataset/chestxray.py), [Diagnosis Close (yes/no) Format Dataset](https://github.com/chaoyi-wu/RadFM/blob/main/src/Dataset/dataset/binary.py) | chestxray_balance_train_new.csv, chestxray_balance_test.csv|


## Acknowledgment:
We sincerely thank all the contributors who uploaded the relevant data in our dataset online. We appreciate their willingness to make these valuable cases publicly available.

Expand Down

0 comments on commit ef888a7

Please sign in to comment.