This section describes commands and options that control how the images are displayed in FireVoxel. These commands include navigation through slices and dynamic frames. These tools do not modify the image data, but only change how the images are displayed. Customized views can be saved as FireVoxel documents.
Many of these commands are available under the View tab on the main menu. Selected commands are also accessible through the Toolbar.
Additional tools for adjusting the appearance of layers (such as the layer order, visibility, ROI color, and color map options) are available through Layer Control.
Images loaded in FireVoxel can be displayed in Slice View, when only one slice is shown in the document window, or Film View, when all slices are shown as tiles in the same document window (Fig. 9.1).
If the document is dynamic, Film View displays all slices at the same value of dynamic variable (such as time, b-value, echo time, etc.).
To switch back and forth between the Slice and Film views, double-right-click anywhere on the image.
To select the default initial view used when images are first loaded into FireVoxel, use File > User Interface Options > Initial layout.
9.3.1. New view¶
Creates a copy of the active document window in a new window. The original window is renamed [name]:1 and the new window is named [name]:2, etc. Each view can be manipulated independently and saved separately.
Arranges all document windows as a stack (cascade), with the active window in front.
Arranges all document windows as tiles (Fig. 9.2). Minimized windows are not tiled and remain minimized.
9.3.4. Show Main Toolbar¶
Toggles on/off the visibility of the toolbar. Checked by default (toolbar visible).
9.3.5. Select All¶
Selects all vector entities (vector ROIs, polylines, and spline contours) in the active document. With all vector entities selected, clicking anywhere outside the vectors deselects all of them. Clicking any vector entity selects that entity and deselects the others.
188.8.131.52. Close Document¶
CAUTION: No file save dialogue. Any unsaved changes may be lost.
Closes the active document.
To avoid losing unsaved work, close each document by clicking the cross in the upper right corner. Alternatively, close FireVoxel, in which case the file-save dialog will be shown for each document one by one.
184.108.40.206. Close All Documents¶
CAUTION: No file save dialogue.
Closes all documents.
220.127.116.11. Close All Documents but this¶
CAUTION: No file save dialogue.
Closes all documents except the active one.
18.104.22.168. Close All Views but this¶
Closes all views of the images displayed in the active window (usually orthogonal projections) except the active window.
9.4.1. Set projection for this view (View & Toolbar)¶
Opens a dialog panel (Specify Volume Projection, Fig. 9.3) to configure orthogonal projection for the current document window. Clicking View Projection icon opens the same panel.
The top part (Rotation) contains boxes to enter angles (in degrees) of rotation about X, Y, and Z axes. Orthogonal rotations can be applied by clicking buttons +/-90 (degrees) (Fig. 9.4, Fig. 9.5, Fig. 9.6).
Clicking Original restores the original orientation. The Type dropdown menu offers the choice of several types of views: Normal (regular rotation, default), Max Intensity (maximum intensity projection), Max Intensity with Zero block, Min Intensity (minimum intensity projection), Slab Average (each voxel contains average signal at that location over the entire slab). ADD DETAILS
9.4.2. Reset projection for this view (View)¶
Restore the original view for the current document window.
9.4.3. Max intensity projection snapshot (View)¶
Opens a new document window (named snapshot) with the maximum intensity projection (Fig. 9.7).
The snapshot has the same in-plane dimensions as the original image, but contains only a single slice.
The snapshot cannot be converted back into the original image. In contrast, maximum intensity image obtained using Set projection with Type > Max intensity can be reset to the original image by selecting Type > Normal.
9.4.4. Display orthogonal projections (Toolbar)¶
Clicking Display orthogonal projections toolbar icon opens document windows with orthogonal projections complementary to the active document window. For example, if the active document window displays an axial view, the command opens two new document windows showing coronal and sagittal views. By default, the new windows are tiled.
If the View Convention is Radiological (left side on the right), Display orthogonal projections opens two additional windows (for a total of three windows, including the original).
If the View Convention is Neurological (right side on the right), Display orthogonal projections opens three additional windows: the orthogonal projections plus the original projection in left-side-on-the-left orientation (for a total of four windows, including the original).
If the user clicks Display orthogonal projections icon two or more times (with the same or different windows activated), no new windows are opened besides the original set, although document windows may be re-tiled after each icon click.
9.5.1. Zoom By Window (View & Toolbar)¶
Zoom in on a rectangular selection with a mouse. To launch the tool, select View > Zoom by window or click icon (cursor becomes a magnifying glass). To use, click the image, drag the mouse to expand a white dashed rectangle and release the mouse button. Tool quits upon mouse release. To undo and return to the original view, use View > Zoom All.
9.5.2. Zoom in/out with fixed upper left corner (View & Toolbar)¶
Zoom whole image relative to the upper left corner. To apply, select View > Zoom in or Zoom out or click icons or . Repeat until a desired zoom level is reached.
9.5.3. Zoom All and fit to View (View & Toolbar)¶
Restore original view (undo zoom in or out). To apply, select View > Zoom All or clicking Zoom All toolbar icon .
9.5.4. Zoom 1x1 (View)¶
Display each image voxel as one pixel on screen. Use Zoom All to return to the original view.
9.6.1. Display\Hide vector¶
Toggles on/off (checked/unchecked) visibility of vector ROIs and polylines in the active document window (or current view if several orthogonal projections are open).
9.6.2. Display\Hide raster¶
Toggles on/off visibility of image layers and raster ROI layers in the active document window (or current view if several orthogonal projections are open).
9.6.3. Display\Hide grid¶
Toggles on/off visibility of a rectangular grid. Opens dialog (Specify Grid Step) with a box for entering the Grid Step in millimeters. Displays a square grid of green lines spaced by grid step in row and column dimensions. The grid is shown for all slices, but only for the current view (if orthogonal projections are displayed). To change the grid step, use this command twice and enter a new grid step.
9.6.4. Display\Hide Curve Length¶
For a vector (a two-point polyline), toggles on/off the visibility of the length of the segment between two points. The length (in millimeters) is displayed next to the polyline as a red number (Fig. 9.8).
For a sector (a three-point polyline), toggles on/off the angle measure, displayed as a green number.
9.6.5. Enumerate polylines¶
Toggles on/off the visibility of the numbers labeling control points in polylines and MagTrace splines (Fig. 9.9).
The numbers are shown as red numbers next to each control point. The numbers remain visible for both active and inactive polylines.
9.7.1. Play 4D experiment (Toolbar)¶
Clicking Play 4D experiment icon to display the dynamic frames of the current slice consecutively for a user-specified time interval. Opens dialog (Specify Interframe time delay (.001 sec precision)) with a box for entering the time during which each frame is shown. Clicking OK starts the sequence of views. The cursor turns into a blue wheel.
9.7.2. Display voxel TAC (Toolbar)¶
Clicking Display voxel TAC icon opens a panel to view the time-activity curve (TAC) at the current voxel (Dynamic Activity Curve: Signal values, Fig. 9.10).
The panel shows the TAC plot, with the origin and maximum values of the horizontal and vertical axes.
Attributes – Opens dialog to enter T1 value for conversion to concentration.
Concentration – Opens panel (Concentration Conversion) for converting MRI signal intensity to gadolinium concentration.
Radius (voxels) – Up and down arrow buttons for adjusting the size of the sampled area. Default size, 0 (1 voxel).
2D (checkbox) – Checked by default, toggles between 2D and 3D sampling mode.
Save – Opens browse for file dialog for saving the current TAC as a text file with two columns: dynamic dimension and signal.