You can list the voxels beloging to selected objects with List Voxels.įinally there are functions to visualise and select the 3D objects. Contact surface between objects can be computed as well. It may take a while if many objects are selected, since all distances between all pairs will be computed. You can compute co-localisation volume between two objects using Colocalisation. It may take a while if many objects are selected, since all distances between all pairs will be computed.Īngles between 3 selected objects can be computed using Angles. In case the selected image is a labelled image (with different objects) the intensity measurement can be used to count the number of objects inside the selected objects in the 3D Manager.ĭistances between two selected objects can be performed using Distances, see options to select the different measurements. Intensity and counting measurements for selected objects using the current selected image are performed using Quantif 3D, see options to select the different measurements. Geometrical and shape measurements for selected objects are performed using 3D Measure, see options to select the different measurements. Various measurements can be performed, for batch processing you can use the plugin version that will perform measurements for all objects in a labelled image. If the object is too compact it will not be split. One object can be split into two objects (see details in options) with the Split in two button. The labelled image will not be updated and eventual separation between objects will not be filled. Two or more objects can be merged into one object with the Merge button. Selected objects can be removed from the list with the Delete button or erased from the current image with Erase. Selected objects can be renamed using the Rename button, specify the prefix name, numbering will be added. Objects can be selected as usual by selecting them in the list, using Ctrl to add to the list ans Shift to select an interval. After a while, the list of objects is updated, and the default name will give information about their numbering in the list with obj and their id value in the labelled image with val. Once you have a labelled image, you can import it by adding the objects to the 3D Manager, by selecting the Add Image button. Select low and high threshold for thresholding and labelling, if your image stack is already thresholded just use the default values. You can perform basic segmentation and labelling using 3D Segmentation button. microPublication Biology - 10.17912/ plugin allows to manage 3D ROI and perform various interactive measurements. ![]() ImageJ/Fiji ROI 1-click tools for rapid manual image annotations and measurements. In ImageJ, copy the file Roi 1-Click Tools.ijm to ImageJ\macros\toolsets Documentation In Fiji, activate the ROI 1-click tools update site.
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