Dragonfly Help > Segmentation > ROI Pop-Up Menu

ROI Pop-Up Menu

A pop-up menu is available that provides options for exporting, importing, and further processing regions of interest.

ROI pop-up menu options
	Description
Crop	Opens the Dataset Cropper panel. In this panel you can crop ROIs to the clip box defined with the Clip box tool (see Cropping Datasets).
Sample	Opens the Dataset Sampler panel. In this panel you can modify the image spacing by upsampling or downsampling (see Sampling Datasets).
Invert	Opens the Dataset Inverter panel. In this panel you can invert the labeled voxels within a region of interest (see Inverting Datasets).
Dataset Properties	Opens the Dataset Properties panel. The basic and advanced properties related to an ROI can be viewed and modified here (see Dataset Properties).
Generate Contour Mesh	Generates a contour mesh that describes the surface of a region of interest (see Generating Contour Meshes from ROIs).
Export as Multiple ORSObject	Exports each selected ROI as a separate ORS Object File (*.ORSObject extension) to a selected folder. ORS files are proprietary binary formatted files in which data is written sequentially and XML (Extensible Markup Language) is appended after the binary data (see Exporting Objects).
Export as ORSObject	Exports the ROI or multiple ROIs to an ORS Object File (*.ORSObject extension). ORS files are proprietary binary formatted files in which data is written sequentially and XML (Extensible Markup Language) is appended after the binary data (see Exporting Objects). Exported regions of interest can be reloaded to continue a segmentation or to maintain consistency on related datasets.
Export Data to File	Exports the basic properties (name, T index, total voxel count, tagged voxel count, and so on) of the selected ROI(s) and its statistical properties (volume of the tagged voxels, percentage volume, and the min, max, mean, and standard deviation of the associated dataset) in the CSV file format.
Export in GDT1 Format	Exports the basic properties (name, T index, total voxel count, tagged voxel count, and so on) of the selected ROI(s) and its statistical properties (volume of the tagged voxels, percentage volume, and the min, max, mean, and standard deviation of the associated dataset) in the GDT1 file format.
Execute Macro	Provides a shortcut for selecting macros that can be executed for ROIs.
New Connectivity Multi-ROI Analysis	Creates a new connectivity multi-ROI, in which each group of connected voxels is labeled as a distinct object, and performs a statistical analysis of selected parameters. Results are presented in the Object Analysis dialog, in which you can further analyze the multi-ROI. See Quantification for information about analyzing the objects in a multi-ROI.
New Connectivity Multi-ROI	Creates a new connectivity multi-ROI, in which each group of connected voxels is labeled as a distinct object. The initial parameter calculated is label count. See Quantification for information about analyzing a multi-ROI.
Copy	Copies the selected region of interest and adds it to the list of ROIs.
Save as Template	Saves the selected regions of interest as a template (see ROI Templates).
Derive New from Current View	Allows you to save reformations, such as oblique and double-obliques, that were applied with the Walk tool and other methods. The result is a new region of interest formatted in the current space (see Creating Oblique Views).
Align with Current View	Automatically rotates the selected ROi(s) so that the selected axis is aligned to the Z-axis of the world coordinate system.
Align Centroid With	Automatically aligns the centroid of the selected region of interest with the centroid of another object. Applicable objects include volumetric image data, regions of interest, multi-ROIs, and meshes. Reference objects can be selected in the Choose the object to align with dialog, shown below. NOTE The centroid of a region of interest is calculated from the bounding box that encapsulates the labeled voxels of the ROI. It is not calculated from its geometry.
Apply Transformation From	Automatically applies transformations, such as translations and rotations, that were applied to a reference object to the selected region of interest. You should note that only objects that were previously transformed will be available as a reference in the Choose an object dialog, shown below.
Connected Porosity	Automatically identifies region of interest segments as connected and non-connected porosity (see Connected Porosity). NOTE This feature is available for Dragonfly Pro only.
Histogram	Plots a histogram of the selected region of interest with the values of a selected dataset (see Region of Interest Histograms).
Create Multi-ROI from ROI(s)	Creates a new multi-ROI, in which the labeled voxels of each selected ROI is labeled as a distinct object. For example, if you create a multi-ROI from five regions of interest, then the multi-ROI will contain five labels.
Compute Watershed	Computes a Watershed segmentation using the labeled voxels in the selected regions of interest as the seed points. You can choose the dataset that will provide the local topography for the watershed algorithm in the dialog shown below. NOTE It is important to create ROIs that will provide enough information for the seed points and that prevent bleeding from one region to another. In the example below, three regions of interest were created within ranges for the background (orange), media (yellow), and fibers (blue) and then the Watershed was computed.
Create a Distance Map	Creates a distance map from the selected ROI or ROIs (see Creating Distance Maps).
Create a Signed Distance Map	Creates a signed distance map from the selected ROI or ROIs (see Creating Distance Maps).
Align Axis of Inertia	Lets you automatically align the axis of inertia of the selected region of interest with the axis of inertia of another ROI.
Crop to Bounding Box	Automatically crops the region of interest to the bounding box that encapsulates the labeled voxels of the ROI. You should note that unless the bounding box is the same shape as the region of interest, the percentage of labeled pixels will increase (see Statistical Properties).
Look at Center of Mass	Automatically aligns the center of mass of the selected region of interest in the current 2D scene views. You should note that the center of mass is calculated from the labeled voxels within the bounding box of the ROI.
New Binary Image from ROI	Automatically creates a new dataset(s) in which labeled voxels in the selected region(s) of interest are assigned a value of 1 and unlabeled voxels are assigned a value of 0.
Resample Geometry	Copies the intersected values of the selected object(s) into the geometry (or shape) of another object to create a new dataset. Might be necessary if you need to extract statistics from an ROI or multi-ROI, such as the minimum, maximum, or mean values of corresponding image data (see Statistical Properties), or intend to compute other measures that require consistent shapes. Enter a new name for the sampled object in the Name field. Choose the object with the required geometry in the Geometry drop-down menu. Click OK. The intersected values are copied into the new shape and the resulting object appears in the Data Properties and Settings panel.

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