NVM Help

Keyboard Commands

Image Window

Tool Changing

* select already active tool again: Sets the current tool to the previously selected tool. Example: while drawing ('d'), set eraser ('q') to erase something, then pressing 'q' (Erase Tool is already selected) to return to Draw Tool. Note: this feature is turned off by default. See the "Keys" tab in the "General" preferences to turn it on.
* " " (space) Base Mode: Sets the current tool to the arrow (selection) tool.
* "q" Set Erase Tool: Sets the current tool to the erase tool.
* "c" Set Contour Tool: Sets the current tool to the iso-intensity contour tool.
* “d” Set Draw Tool: Sets the current tool to the manual drawing tool.
* "f" Fill and Histogram: take a histogram over the outline region indicated by the current mouse position. This opens the histogram window if it is not already open.
* "A" AutoContour: show AutoContour window. This is the same as showing the window from the Window menu.
* "z" Set Zoom Tool: Sets the curent tool to the zoom in/out tool.
* "g" Set nudGe Tool: Sets the current tool to the nudge tool.
* "G" When Nudge Tool is selected, undo last nudge

Contours

* "E" - Extract: extracts (converts) a contour into an outline. For this version of extract, the final outline will depend on the current contours only (not on any outlines which may be present). The contour to be extracted is the first one above the current mouse position. The extracted outline is selected. Use the Edit:Preferences menu to select the contour colors that will be extracted.
* "e" - Extract All: extracts (converts) a contour into an outline. For this version of extract, "All" means the final outline will depend on contours and outlines. The contour to be extracted is the first one above the current mouse position. The extracted outline is selected. Use the Edit:Preferences menu to select the contour colors that will be extracted.
* "I" - Inside-Re-Extract: unextracts most recently extracted outline, converts it into a contour, then re-extracts it from the inside. Like "i" below except it only considers contours like "E" above.
* "i" - Inside-Re-Extract All: unextracts most recently extracted outline, converts it into a contour, then re-extracts it from the inside. "All" means it considers both contours and outlines like "e" above.
* "x" - Delete Contour: clears the current contour color for the current slice.
* "X" - Delete Most Contours: clears all extractable contour colors for the current slice.
* "ctrl-X" - Delete All Contours: clears all contour colors for the current slice.
* "v" - Promote Selected Contour: changes the color of the currently selection contour to the next one to the right (wraps around if at end).
* "V" - Demote Selected Contour: changes the color of the currently selection contour to the next one to the left (wraps around if at end).
"C" Cut contour
* "Z" - Clear all: UN-extracts all outlines and also clears most contour colors for the current slice. This is like pressing "W" and then "X".
* "ctrl-Z" - Clear all: UN-extracts all outlines and also clears all contour colors for the current slice. This is like pressing "W" and then "ctrl-X".
* " " (space) - un-select currently selected contour.

Outlines

* "w" - Delete Last Outline: UN-extracts the last outline that was extracted. This can be repeated until all outlines are gone.
* "W" - Delete All Outlines: UN-extracts all outlines in the current slice.
* "Z" - Clear all: UN-extracts all outlines and also clears all contour colors for the current slice. This is like pressing "W" and then "X".
* "ctrl-Z" - Clear all: UN-extracts all outlines and also clears all contour colors for the current slice. This is like pressing "W" and then "ctrl-X".
* ctrl-l (control lower case "L") - Load: load the outlines for the current slice. This is the same as pressing the "load otl" button.
* ctrl-L (control upper case "L") - Load: all outlines. This is the same as pressing shift and the "load otl" button at the same time.
* ctrl-s (control lower case "S") - Save: save the outlines for the current slice. This is the same as pressing the "Save otl" button.
* ctrl-S (control upper case "S") - Save: save all outlines. This is the same as pressing shift and the "Save otl" button at the same time.
* ctrl-o (control lower case letter "O") - Overwrite outline: save the outlines for the current slice without asking if it is ok to overwrite the existing file. (This used to be ctrl-w).
* ctrl-O (control upper case letter "O") - Overwrite ALL outlines: save the outlines for the all slices without asking if it is OK to overwrite the existing files.
* " " (space) - UN-select currently selected outline.
* "s" Toggle left/right in label under cursor.
* "m" load outlines from 3D mask for this slice
* "M" load outlines from 3D mask for all slices
* "ctrl-f" (control lower case "F") - Find Label: starting at the current slice, search through all slices for the label currently selected in the Label Tool. There are two version of the "Find" command. This one searches for labels after everything is drawn. The other version (only available through a menu in the Label Tool) searches through every outline in each slice.
* "ctrl-g" (control lower case "G") - Replace and Find again: After using ctrl-f to find a label, use the Label Tool to change the currently selected label. Then ctrl-g will replace the latest found outline's label and then find another.

Show/Hide

* "r" - show/hide contours: shows or hides contours for the current slice. The contours still exist (i.e. they are not deleted). This is the same as changing the "show contours" check button in the image's view.
* "R" - show/hide outlines: shows or hides outlines for the current slice. The outlines still exist (i.e. they are not deleted). This is the same as changing the "show outlines" check button in the image's view.
* "S" - show/hide left/right colors for labels.
* "t" - show/hide NON-ignored contours: shows or hides the contours that are used during extraction. The contours still exist (i.e. they are not deleted). This is the same as changing the "show extractable contours" check button in the image's view.
* "T" - show/hide colors: shows or hides the filled-in colors of outlines. This is the same as changing the "Fill Outlines with Color" check button in the image's view.
* “u” show/hide Surfaces.
“U” show/hide Surfaces Control Points.
* tab key - show/hide projection lines.

Slice Changing

* "-" - decrease slice by 1
* "=" - increase slice by 1 ('=' is like pressing the "+" key without the capitalization).

Zoom

* "z" - Activate the zoom tool.
* "_" - zoom out (like pressing the "-" key but capitalized)
* "+" - zoom in
* right, left, up, down arrow keys - pan brain in image (with shift-, larger jumps, with ctrl- even larger).

Miscellaneous

* "p" - save as ".ppm": Save the image indicated by the current mouse position as a "portable pixmap" file using the file name "<viewname>_image.ppm" (without projection lines and landmarks).
* Enter Key - in SegMentor, go on to execute the next step.
* "a" - Same as Enter Key (go on to execute next step in SegMentor)

Histogram Window

* "s" scales to full histogram
* “c” clears white region in image where histogram was taken
* "h" to hide histogram window

Zorro

* left mouse Toggle mask at current mouse location
* right mouse print all data at current mouse location (same as shift-left mouse with the Arrow tool)
* ctrl-left mouse Region Grow from current mouse location
* ctrl-right mouse Set Region Grow DOI using voxel at current mouse location

* "`c" show color-coded DTMRI image
* "`1" show first (V1) vector in color-coded DTMRI image
* "`2" show second (V2) vector in color-coded DTMRI image
* "`3" show third (V3) vector in color-coded DTMRI image
* "`S" toggle masking of colors by segmentation mask (was za)
* "`a" toggle modulation of colors by anisotropy (was zo)
* "`w" toggle showing of CSF over colors
* "`l" show lattice anisotropy image
* "`f" show fractional anisotropy image
* "`t" show T2 EPI image
* "`s" show segmentation mask image
* "`r" show region grow mask
* "`m" show selection mask
* "`g" set region Grow parameters
* "`e" extract region grow mask into selection mask for this slice
* "`E" extract region grow mask into selection mask for all slices
* "`o" extract current outline label into selection mask for this slice
* "`O" extract current outline label into selection mask for all slices
* "`R" extract current outline label into region grow mask for this slice
* "`v" set mask Value
* "`x" remove (clear) current mask values for current slice
* "`X" remove (clear) all mask values for current slice
* "`z" remove (clear) current mask values for all slices
* "`Z" remove (clear) all mask values for all slices
* "`p" Print average and sdev anisotropies over selection mask (but only for the current mask value)
* "`P" Print average and sdev anisotropies over ALL selection mask values
* "`M" execute operations on masks
* "`F" Run Mori et al.'s FACT (fiber tracing) method starting with each voxel in the region growing mask

Keyboard Commands

Menu

Image Window

Histogram Window

Zorro