DeepISLES - Stroke Lesion Segmentation in MRI Releases

Zenodo_Releases DeepISLES - Standalone software with GUI (10.5281/zenodo.14647829)

edelarosa@www.nitrc.org (Ezequiel de la Rosa) — Tue, 14 Jan 2025 19:33:32 GMT

A standalone release of DeepISLES that includes a user-friendly graphical interface for both single and batch MRI processing. DeepISLES provides state-of-the-art stroke lesion segmentation in MRI. Source code is available <a href="https://github.com/ezequieldlrosa/DeepIsles">here</a>. 
<h2>Installation and Requirements</h2>
<h3>Linux (Ubuntu ≥ 20.04)</h3>
<ol>
<li>
Install Docker Desktop
<ul>
<li>Docker Desktop for Linux: <a href="https://www.docker.com/products/docker-desktop" target="_new" rel="noopener">https://www.docker.com/products/docker-desktop</a></li>
</ul>
</li>
<li>
Install NVIDIA Container Toolkit
<ul>
<li>NVIDIA Container Toolkit: <a href="https://docs.nvidia.com/datacenter/cloud-native/container-toolkit/latest/install-guide.html#" target="_new" rel="noopener">https://docs.nvidia.com/datacenter/cloud-native/container-toolkit/latest/install-guide.html#</a></li>
</ul>
</li>
<li>
Run the DeepISLES Installer
<ul>
<li>Execute the here-in provided installer to complete setup</li>
</ul>
</li>
</ol>
<h3>Windows (10/11)</h3>
<ol>
<li>
Install Docker Desktop
<ul>
<li>Docker Desktop for Windows: <a href="https://www.docker.com/products/docker-desktop" target="_new" rel="noopener">https://www.docker.com/products/docker-desktop</a></li>
</ul>
</li>
<li>
Configure Docker for WSL 2
<ul>
<li>Run Docker Desktop as Administrator</li>
<li>Open Settings and enable WSL 2</li>
</ul>
</li>
<li>
Run the DeepISLES Installer
<ul>
<li>Execute the here-in provided installer to complete setup </li>
</ul>
</li>
</ol>
<h2>Please Cite</h2>
<ul>
<li>
de la Rosa, E., Reyes, M., Liew, S. L., Hutton, A., Wiest, R., Kaesmacher, J., … & Wiestler, B. (2024). A Robust Ensemble Algorithm for Ischemic Stroke Lesion Segmentation: Generalizability and Clinical Utility Beyond the ISLES Challenge. arXiv:2403.19425
</li>
<li>
Hernandez Petzsche, M. R., de la Rosa, E., Hanning, U., Wiest, R., Valenzuela, W., Reyes, M., … & Kirschke, J. S. (2022). ISLES 2022: A multi-center magnetic resonance imaging stroke lesion segmentation dataset. Scientific Data, 9(1), 762.
</li>
</ul>

Zenodo_Releases DeepISLES - Standalone software with GUI (10.5281/zenodo.14628661)

edelarosa@www.nitrc.org (Ezequiel de la Rosa) — Fri, 10 Jan 2025 15:42:51 GMT