# **BiomedParseData**

BiomedParseData was created from preprocessing publicly available biomedical image segmentation datasets. 

These datasets are provided pre-formatted for convenience. For additional information about the datasets or their licenses, please reach out to the owners:
| Dataset                               | URL |
|---------------------------------------|-----|
| amos22                                | [https://amos22.grand-challenge.org/](https://amos22.grand-challenge.org/) |
| MSD (Medical Segmentation Decathlon)  | [http://medicaldecathlon.com/](http://medicaldecathlon.com/) |
| KiTS23                                | [https://github.com/neheller/kits23](https://github.com/neheller/kits23) |
| BTCV                                  | [https://www.synapse.org/#!Synapse:syn3193805/wiki/217790](https://www.synapse.org/#!Synapse:syn3193805/wiki/217790) |
| COVID-19 CT                           | [https://www.kaggle.com/datasets/andrewmvd/covid19-ct-scans](https://www.kaggle.com/datasets/andrewmvd/covid19-ct-scans) |
| LIDR-IDRI                             | [https://wiki.cancerimagingarchive.net/display/Public/LIDC-IDRI](https://wiki.cancerimagingarchive.net/display/Public/LIDC-IDRI) |
| ACDC                                  | [https://www.creatis.insa-lyon.fr/Challenge/acdc/databases.html](https://www.creatis.insa-lyon.fr/Challenge/acdc/databases.html) |
| M&Ms                                  | [https://www.ub.edu/mnms/](https://www.ub.edu/mnms/) |
| PROMISE12                             | [cite https://doi.org/10.1016/j.media.2013.12.002](https://doi.org/10.1016/j.media.2013.12.002) |
| LGG                                   | [https://www.kaggle.com/datasets/mateuszbuda/lgg-mri-segmentation](https://www.kaggle.com/datasets/mateuszbuda/lgg-mri-segmentation) |
| COVID-QU-Ex                           | [https://www.kaggle.com/datasets/anasmohammedtahir/covidqu](https://www.kaggle.com/datasets/anasmohammedtahir/covidqu) |
| QaTa-COV19                            | [https://www.kaggle.com/datasets/aysendegerli/qatacov19-dataset](https://www.kaggle.com/datasets/aysendegerli/qatacov19-dataset) |
| SIIM-ACR Pneumothorax Segmentation    | [https://www.kaggle.com/datasets/vbookshelf/pneumothorax-chest-xray-images-and-masks](https://www.kaggle.com/datasets/vbookshelf/pneumothorax-chest-xray-images-and-masks) |
| Chest Xray Masks and Labels Dataset   | [https://datasetninja.com/chest-xray](https://datasetninja.com/chest-xray) |
| COVID-19 Radiography Database         | [https://www.kaggle.com/datasets/tawsifurrahman/covid19-radiography-database](https://www.kaggle.com/datasets/tawsifurrahman/covid19-radiography-database) |
| CAMUS                                 | [https://www.creatis.insa-lyon.fr/Challenge/camus/index.html](https://www.creatis.insa-lyon.fr/Challenge/camus/index.html) |
| BUSI                                  | [https://scholar.cu.edu.eg/?q=afahmy/pages/dataset](https://scholar.cu.edu.eg/?q=afahmy/pages/dataset) |
| FH-PS-AOP                             | [https://zenodo.org/records/7851339#.ZEH6eHZBztU](https://zenodo.org/records/7851339#.ZEH6eHZBztU) |
| CDD-CESM                              | [https://www.cancerimagingarchive.net/collection/cdd-cesm/](https://www.cancerimagingarchive.net/collection/cdd-cesm/) |
| PolypGen                              | [https://www.synapse.org/#!Synapse:syn26376615/wiki/613312](https://www.synapse.org/#!Synapse:syn26376615/wiki/613312) |
| NeoPolyp                              | [https://www.kaggle.com/c/bkai-igh-neopolyp/data](https://www.kaggle.com/c/bkai-igh-neopolyp/data) |
| ISIC 2018                             | [https://challenge2018.isic-archive.com/task1/](https://challenge2018.isic-archive.com/task1/) |
| UwaterlooSkinCancer                   | [Skin Cancer Detection \| Vision and Image Processing Lab \| University of Waterloo](https://uwaterloo.ca) |
| OCT-CME                               | [https://www.kaggle.com/datasets/zeeshanahmed13/intraretinal-cystoid-fluid](https://www.kaggle.com/datasets/zeeshanahmed13/intraretinal-cystoid-fluid) |
| REFUGE                                | [https://bitbucket.org/woalsdnd/refuge/src](https://bitbucket.org/woalsdnd/refuge/src) |
| G1020                                 | [https://www.dfki.uni-kl.de/g1020](https://www.dfki.uni-kl.de/g1020) |
| DRIVE                                 | [https://drive.grand-challenge.org/](https://drive.grand-challenge.org/) |
| GlaS                                  | [https://warwick.ac.uk/fac/cross_fac/tia/data/glascontest/](https://warwick.ac.uk/fac/cross_fac/tia/data/glascontest/) |
| PanNuke                               | [https://jgamper.github.io/PanNukeDataset/](https://jgamper.github.io/PanNukeDataset/) |
| FUMPE                                 | [https://figshare.com/collections/FUMPE/4107803/1](https://figshare.com/collections/FUMPE/4107803/1) |
| TotalSegmentator                      | [https://github.com/wasserth/TotalSegmentator](https://github.com/wasserth/TotalSegmentator) |
| BraTS2023                             | [https://www.synapse.org/#!Synapse:syn51156910/wiki/621282](https://www.synapse.org/#!Synapse:syn51156910/wiki/621282) |
| AbdomenCT-1K                          | [https://github.com/JunMa11/AbdomenCT-1K](https://github.com/JunMa11/AbdomenCT-1K) |
| US Simulation & Segmentation          | [https://www.kaggle.com/datasets/ignaciorlando/ussimandsegm](https://www.kaggle.com/datasets/ignaciorlando/ussimandsegm) |
| CDD-CESM                              | [https://www.cancerimagingarchive.net/collection/cdd-cesm/](https://www.cancerimagingarchive.net/collection/cdd-cesm/) |