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microscopytools [2021/01/17 18:55] bioimaging [Image viewers from microscopy companies] |
microscopytools [2022/08/30 16:20] bioimaging [Software developed by the Bioimaging Unit] |
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===== Software developed by the Bioimaging Unit ===== | ===== Software developed by the Bioimaging Unit ===== | ||
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+ | * {{:icon_staqtool.png?30|}} **[[software_staqtool|STaQTool - Spot Tracking and Quantification Tool]]** | ||
+ | * Track diffraction-limited spots in 2D or 3D time-lapse sequences | ||
+ | * Quantify total fluorescence intensity with Gaussian fitting | ||
+ | * Detect single events of fluorescence gain and loss | ||
* {{:icon_ubi.png?30|}} **[[software_cclab|Cell Counter L*a*b*]]** | * {{:icon_ubi.png?30|}} **[[software_cclab|Cell Counter L*a*b*]]** | ||
* Count cells with specific nuclear and cytoplasmic staining in color images (immunohistochemical staining) | * Count cells with specific nuclear and cytoplasmic staining in color images (immunohistochemical staining) | ||
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+ | * {{:icon_ubi.png?30|}} **[[software_cclab2|Cell Counter L*a*b* 2]]** | ||
+ | * Count 2 different cell populations with blue and brown staining in color images (immunohistochemical staining) | ||
+ | |||
+ | * {{:icon_ubi.png?30|}} **[[software_mccczi|Multichannel Cell Counter CZI]]** | ||
+ | * Count cells with specific fluorescent labeling combinations - CZI files | ||
* {{:icon_ubi.png?30|}} **[[software_mcclsm|Multichannel Cell Counter LSM]]** | * {{:icon_ubi.png?30|}} **[[software_mcclsm|Multichannel Cell Counter LSM]]** | ||
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* {{:icon_ubi.png?30|}} **[[software_mcc4tiff|Multichannel Cell Counter 4TIFF]]** | * {{:icon_ubi.png?30|}} **[[software_mcc4tiff|Multichannel Cell Counter 4TIFF]]** | ||
* Count cells with specific fluorescent labeling combinations - 4 TIF files | * Count cells with specific fluorescent labeling combinations - 4 TIF files | ||
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- | * {{:icon_staqtool.png?30|}} **[[software_staqtool|STaQTool - Spot Tracking and Quantification Tool]]** | ||
- | * Track diffraction-limited spots in 2D or 3D time-lapse sequences | ||
- | * Quantify total fluorescence intensity with Gaussian fitting | ||
- | * Detect single events of fluorescence gain and loss | ||
- | |||
===== Image analysis and visualization software ===== | ===== Image analysis and visualization software ===== | ||
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* {{:fiji-icon.png?35|}} **[[http://fiji.sc/Fiji|FIJI]]** | * {{:fiji-icon.png?35|}} **[[http://fiji.sc/Fiji|FIJI]]** | ||
- | * Fiji Is Just ImageJ (and a lot of plugins organized into a coherent menu structure) | + | * Fiji Is Just ImageJ focused on the visualization and analysis of microscope images in 2D, 3D, 4D and 5D |
* {{icy-icon.png?35|}} **[[http://icy.bioimageanalysis.org/|ICY]]** | * {{icy-icon.png?35|}} **[[http://icy.bioimageanalysis.org/|ICY]]** |