Imaging Software
From CLARITY Wiki
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==2-D Image Analysis== |
==2-D Image Analysis== |
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===[http://rsbweb.nih.gov/ij/ Image J]=== |
===[http://rsbweb.nih.gov/ij/ Image J]=== |
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| + | *Free, open source software with multiple plugins available for download (many customized for specific analysis techniques) |
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| + | *User friendly; simple, but powerful |
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| + | *Can use macros to automate analysis |
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| + | *Not ideal for 3-D image viewing |
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| + | ===[http://fiji.sc/Fiji Fiji]=== |
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| + | *Free, open source distribution of Image J with many bundled plugins, an updating system, and a coherent menu structure |
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| + | ==3-D Image Analysis== |
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| + | ===[http://www.bitplane.com/go/products/imaris Imaris]=== |
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| + | *Useful for 3-D image visualization, analysis, and creating movies (software used in original CLARITY Nature article) |
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| + | *Fast and user-friendly; many step-by-step tutorials available in the software and online |
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| + | *High cost: one-time license fee |
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| + | ===[http://www.vsg3d.com/amira/overview Amira]=== |
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| + | *Similar 3-D image processing capabilities as Imaris |
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| + | *Interface more flexible, but not as user-friendly, as Imaris |
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| + | *Allows user to write programs |
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| + | *High cost: yearly license fee |
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| + | ===[http://www.vaa3d.org/ Vaa 3D]=== |
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| + | *Free, open source software with downloadable plugins, similar to Image J |
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| + | *Good 3-D image processing |
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Latest revision as of 01:30, 3 December 2013
No CLARITY-specific image software is necessary for visualization and analysis of clarified tissue. There are several different open source (free) and commercial software programs available.
Contents |
[edit] 2-D Image Analysis
[edit] Image J
- Free, open source software with multiple plugins available for download (many customized for specific analysis techniques)
- User friendly; simple, but powerful
- Can use macros to automate analysis
- Not ideal for 3-D image viewing
[edit] Fiji
- Free, open source distribution of Image J with many bundled plugins, an updating system, and a coherent menu structure
[edit] 3-D Image Analysis
[edit] Imaris
- Useful for 3-D image visualization, analysis, and creating movies (software used in original CLARITY Nature article)
- Fast and user-friendly; many step-by-step tutorials available in the software and online
- High cost: one-time license fee
[edit] Amira
- Similar 3-D image processing capabilities as Imaris
- Interface more flexible, but not as user-friendly, as Imaris
- Allows user to write programs
- High cost: yearly license fee
[edit] Vaa 3D
- Free, open source software with downloadable plugins, similar to Image J
- Good 3-D image processing