BBBC002v1 |
Dataset |
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EBImage |
Software |
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Bioconductor |
Collection |
Manual |
Free and open source |
Image analysis, Image segmentation, Image processing, Geometrical transformation, Morphological operation |
Bioimage informatics, High content screening |
(Z,T) Hyperstack Stitcher |
Software |
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ImageJ |
Component |
Semi-automated |
Free and open source |
Alignment construction, Data handling, Image stitching |
Bioimage informatics, Microscopy |
(Z,T,C) Stitcher |
Software |
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ImageJ |
Component |
Semi-automated |
Free and open source |
Image stitching |
Microscopy |
2-D Colocalisation in Cells |
Software |
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CellProfiler, CellProfiler |
Workflow |
Automated |
Free and open source |
Colocalisation analysis, Object-based colocalisation |
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2D and 3D mitochondrial shape analysis and network properties |
Software |
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ImagePro |
Workflow |
Automated |
Commercial |
Analysis, Image segmentation |
Confocal fluorescence microscopy |
2D and 3D tracking based on global cost function optimization |
Software |
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ImageJ, MTrackJ, ImageScience.jar, Jama, Tracking2.0 |
Workflow |
Automated |
Free and open source |
Object tracking, Particle tracking, Trajectory analysis |
Bioimage informatics, Machine learning |
2D brain slice region annotation: SliceMap |
Software |
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Workflow |
Semi-automated |
Free and open source |
Image registration, Image segmentation |
Widefield microscopy, Fluorescence microscopy |
2D bright field yeast cell images with ground truth annotations |
Dataset |
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2D cell tracking and analysis of morphological dynamics |
Software |
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ImageJ, QuimP |
Workflow |
Semi-automated |
I do not know |
Cell segmentation, Active contours, Cell tracking |
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2D Gaussian fitting macro (Fiji/ImageJ) for multiple signals. |
Software |
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ImageJ, Fiji |
Workflow |
Semi-automated |
Free and open source |
Image analysis, Single molecule localisation |
Bioimage informatics, Single molecule localization microscopy |
2D image processing and Data analysis with Matlab |
Training Material |
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2D spots counting using KNIME |
Software |
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KNIME Image Processing and Analysis |
Workflow |
Automated |
Free and open source |
Spot detection |
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2D tracking using KNIME and Fiji |
Software |
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KNIME Image Processing and Analysis, Fiji |
Workflow |
Semi-automated |
Free and open source |
Object tracking |
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2D-3D distributed parallel region competition segmentation |
Software |
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Component |
Automated |
Free and open source |
Image segmentation |
Bioimage informatics |
3-D Density Kernel Estimation |
Software |
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Jupyter notebook, Python, VIGRA, scikit-learn (sklearn), scikit-image |
Workflow |
Manual |
Free and open source |
Pixel classification, Prediction and recognition, Object counting |
Confocal microscopy, Machine learning |
3D Active Meshes (Icy) |
Software |
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Spot detection utilities, Icy HK-Means, EzPlug SDK, Icy Protocols SDK |
Component |
Automated |
Free and open source |
Cell segmentation, Cell tracking |
Bioimage informatics |
3D affine transformation based on paired points |
Software |
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Fiji |
Component |
Automated |
Free and open source |
Affine transformation, Linear transformation |
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3D Area |
Software |
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Processing |
Component |
Automated |
I do not know |
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3D cell tracking and quantification of shape changes |
Software |
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MATLAB |
Workflow |
Automated |
I do not know |
Cell tracking |
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