| Software . | URL . | Operating system(s) . | Recommended uses; advantages . | Limitations . |
|---|---|---|---|---|
| Drishti | https://github.com/nci/drishti | All (Windows, Mac OS, Linux) | Tools for image viewing, editing, processing, surface and volume rendering, mesh generation, animation; intuitive user interface | Computationally demanding for volume rendering |
| SPIERS | https://spiers-software.org/ | All | Tools for slice registration, image viewing, editing, processing, surface rendering, mesh generation, animation; handles large datasets well even on older/slower machines | Three separate modules for aligning, editing, and viewing; only produces meshes |
| Blender | https://www.blender.org/ | All | Tools for editing 3D meshes, animation, video editing; intuitive user interface, customizable | Lacks tools for basic image processing (requires 3D model) |
| MeshLab | http://www.meshlab.net/ | All | Tools for editing, analyzing, and refining 3D meshes | All processes restricted to working with meshes |
| 3D Slicer | https://www.slicer.org/ | All | Tools for image viewing, editing, processing, surface and volume rendering, file manipulation; intuitive user interface, extensible and customizable with a wide number of available modules, actively supported and developed | Works best on machines with faster graphics processing; may require downsampling of data |
| FIJI | https://fiji.sc/ | All | Tools for image viewing, editing, processing, surface and volume rendering, file manipulation; extensible and customizable via the large number of purpose-built plugins available | Not the most intuitive interface for new users; some plugins no longer actively supported/developed |
| Biomedisa | https://biomedisa.de/ | Not applicable (browser-based) | Semi-automated segmentation, in-browser viewer | Interpolates segments between labeled slices (no other image processing features) |
| MITK Workbench | http://mitk.org/ | All | Tools for image viewing, editing, processing, surface and volume rendering, file manipulation, data management; customizable for developers | Interface may be challenging for new users |
| ITK-SNAP | http://www.itksnap.org/ | All | Tools for manual and semi-automated segmentation; easily navigable user interface | Features limited to those related to segmentation |
| MANGO | http://ric.uthscsa.edu/mango/ | All | Tools for image editing, processing, surface and volume rendering, file manipulation; command line accessible, customizable for developers | Interface may be challenging for new users |
| Software . | URL . | Operating system(s) . | Recommended uses; advantages . | Limitations . |
|---|---|---|---|---|
| Drishti | https://github.com/nci/drishti | All (Windows, Mac OS, Linux) | Tools for image viewing, editing, processing, surface and volume rendering, mesh generation, animation; intuitive user interface | Computationally demanding for volume rendering |
| SPIERS | https://spiers-software.org/ | All | Tools for slice registration, image viewing, editing, processing, surface rendering, mesh generation, animation; handles large datasets well even on older/slower machines | Three separate modules for aligning, editing, and viewing; only produces meshes |
| Blender | https://www.blender.org/ | All | Tools for editing 3D meshes, animation, video editing; intuitive user interface, customizable | Lacks tools for basic image processing (requires 3D model) |
| MeshLab | http://www.meshlab.net/ | All | Tools for editing, analyzing, and refining 3D meshes | All processes restricted to working with meshes |
| 3D Slicer | https://www.slicer.org/ | All | Tools for image viewing, editing, processing, surface and volume rendering, file manipulation; intuitive user interface, extensible and customizable with a wide number of available modules, actively supported and developed | Works best on machines with faster graphics processing; may require downsampling of data |
| FIJI | https://fiji.sc/ | All | Tools for image viewing, editing, processing, surface and volume rendering, file manipulation; extensible and customizable via the large number of purpose-built plugins available | Not the most intuitive interface for new users; some plugins no longer actively supported/developed |
| Biomedisa | https://biomedisa.de/ | Not applicable (browser-based) | Semi-automated segmentation, in-browser viewer | Interpolates segments between labeled slices (no other image processing features) |
| MITK Workbench | http://mitk.org/ | All | Tools for image viewing, editing, processing, surface and volume rendering, file manipulation, data management; customizable for developers | Interface may be challenging for new users |
| ITK-SNAP | http://www.itksnap.org/ | All | Tools for manual and semi-automated segmentation; easily navigable user interface | Features limited to those related to segmentation |
| MANGO | http://ric.uthscsa.edu/mango/ | All | Tools for image editing, processing, surface and volume rendering, file manipulation; command line accessible, customizable for developers | Interface may be challenging for new users |
| Software . | URL . | Operating system(s) . | Recommended uses; advantages . | Limitations . |
|---|---|---|---|---|
| Drishti | https://github.com/nci/drishti | All (Windows, Mac OS, Linux) | Tools for image viewing, editing, processing, surface and volume rendering, mesh generation, animation; intuitive user interface | Computationally demanding for volume rendering |
| SPIERS | https://spiers-software.org/ | All | Tools for slice registration, image viewing, editing, processing, surface rendering, mesh generation, animation; handles large datasets well even on older/slower machines | Three separate modules for aligning, editing, and viewing; only produces meshes |
| Blender | https://www.blender.org/ | All | Tools for editing 3D meshes, animation, video editing; intuitive user interface, customizable | Lacks tools for basic image processing (requires 3D model) |
| MeshLab | http://www.meshlab.net/ | All | Tools for editing, analyzing, and refining 3D meshes | All processes restricted to working with meshes |
| 3D Slicer | https://www.slicer.org/ | All | Tools for image viewing, editing, processing, surface and volume rendering, file manipulation; intuitive user interface, extensible and customizable with a wide number of available modules, actively supported and developed | Works best on machines with faster graphics processing; may require downsampling of data |
| FIJI | https://fiji.sc/ | All | Tools for image viewing, editing, processing, surface and volume rendering, file manipulation; extensible and customizable via the large number of purpose-built plugins available | Not the most intuitive interface for new users; some plugins no longer actively supported/developed |
| Biomedisa | https://biomedisa.de/ | Not applicable (browser-based) | Semi-automated segmentation, in-browser viewer | Interpolates segments between labeled slices (no other image processing features) |
| MITK Workbench | http://mitk.org/ | All | Tools for image viewing, editing, processing, surface and volume rendering, file manipulation, data management; customizable for developers | Interface may be challenging for new users |
| ITK-SNAP | http://www.itksnap.org/ | All | Tools for manual and semi-automated segmentation; easily navigable user interface | Features limited to those related to segmentation |
| MANGO | http://ric.uthscsa.edu/mango/ | All | Tools for image editing, processing, surface and volume rendering, file manipulation; command line accessible, customizable for developers | Interface may be challenging for new users |
| Software . | URL . | Operating system(s) . | Recommended uses; advantages . | Limitations . |
|---|---|---|---|---|
| Drishti | https://github.com/nci/drishti | All (Windows, Mac OS, Linux) | Tools for image viewing, editing, processing, surface and volume rendering, mesh generation, animation; intuitive user interface | Computationally demanding for volume rendering |
| SPIERS | https://spiers-software.org/ | All | Tools for slice registration, image viewing, editing, processing, surface rendering, mesh generation, animation; handles large datasets well even on older/slower machines | Three separate modules for aligning, editing, and viewing; only produces meshes |
| Blender | https://www.blender.org/ | All | Tools for editing 3D meshes, animation, video editing; intuitive user interface, customizable | Lacks tools for basic image processing (requires 3D model) |
| MeshLab | http://www.meshlab.net/ | All | Tools for editing, analyzing, and refining 3D meshes | All processes restricted to working with meshes |
| 3D Slicer | https://www.slicer.org/ | All | Tools for image viewing, editing, processing, surface and volume rendering, file manipulation; intuitive user interface, extensible and customizable with a wide number of available modules, actively supported and developed | Works best on machines with faster graphics processing; may require downsampling of data |
| FIJI | https://fiji.sc/ | All | Tools for image viewing, editing, processing, surface and volume rendering, file manipulation; extensible and customizable via the large number of purpose-built plugins available | Not the most intuitive interface for new users; some plugins no longer actively supported/developed |
| Biomedisa | https://biomedisa.de/ | Not applicable (browser-based) | Semi-automated segmentation, in-browser viewer | Interpolates segments between labeled slices (no other image processing features) |
| MITK Workbench | http://mitk.org/ | All | Tools for image viewing, editing, processing, surface and volume rendering, file manipulation, data management; customizable for developers | Interface may be challenging for new users |
| ITK-SNAP | http://www.itksnap.org/ | All | Tools for manual and semi-automated segmentation; easily navigable user interface | Features limited to those related to segmentation |
| MANGO | http://ric.uthscsa.edu/mango/ | All | Tools for image editing, processing, surface and volume rendering, file manipulation; command line accessible, customizable for developers | Interface may be challenging for new users |
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