From ef888a7c94ad72f6f0004682427cb1ec67a30ce4 Mon Sep 17 00:00:00 2001 From: chaoyi-wu <18706207256@163.com> Date: Sun, 10 Nov 2024 15:01:13 +0800 Subject: [PATCH] Update README.md --- README.md | 32 +++++++++++++++++++++++++++++++- 1 file changed, 31 insertions(+), 1 deletion(-) diff --git a/README.md b/README.md index 4f13afb..05439c7 100644 --- a/README.md +++ b/README.md @@ -53,7 +53,7 @@ Some cases produced by our final model: ## Dataset-Links: -MedKD Dataset downloading URL: +Datasets downloading URL: | Dataset Name | Link | Access | |--------------|------|--------| @@ -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.