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Interface

TkMedit consists of two windows. The Display Window displays data. The Tools Window has toolbars, a menu bar, and display areas for the cursor and mouse location.

Display Window

tkmedit_interface_display.jpg

Here is a look at the program. In this instance, TkMedit is showing the 'orig' volume of a subject named bert-brf as the main volume, and the 'brain' volume as the auxiliary volume. A functional overlay is also loaded.

TkMedit can have two anatomical volumes in memory, the Main and Aux volume, but only one is displayed at a time. To toggle between these, use the alt-c keyboard command, the toolbar buttons ( icon_main_volume.png and icon_aux_volume.png ), or the View->Main Volume / Aux Volume menu commands. The currently displayed volume has a pair of asteriks around its name in the title bar and in the Tools Window.

The cursor in the Display Window is drawn in red and has additional guide marks on the side of the window. The cursor is the center of the current viewing location. If you switch to a different orienation, the cursor will still be visible.

You can resize the Display Window to stretch it out, but be aware that non-square window sizes will cause distortions.

Tools Window

tkmedit_interface_tools.jpg

The menu bar on the top of the Tools Window contains four menus. The File menu is for loading and unloading data and for saving changes. The Edit menu contains undo utilities. The View menu contains options for specifying what data is displayed and configuring how it is displayed. The Tools menu contains commands and utilities for working on data.

There are two toolbars visible by default; in this picture, the middle toolbar is visible as well. The Main toolbar has buttons for selecting the different tools, as well as the surface display, and for toggling between the Main and Aux anatomical volume. The Navigation toolbar lets you switch orientations, zoom in and out, change slices, and load a cursor location from TkSurfer. The Reconstruction toolbar contains tools that aid in the reconstruction pipeline. Hover your mouse over any button to see the corresponding shortcut key.

Main Toolbar

icon_navigate.gif

Navigation tool

icon_edit_label.gif

Edit Label tool

icon_edit_volume.gif

Edit Volume tool

icon_edit_parc.gif

Edit Segmentation tool

icon_edit_ctrlpts.gif

Edit Control Points tool

icon_line_tool.gif

Line tool

icon_surface_main.gif

Show the main surface

icon_surface_original.gif

Show the orig(inal) surface configuration

icon_surface_pial.gif

Show the pial surface configuration

icon_main_volume.gif

Show the main volume

icon_aux_volume.gif

Show the aux volume

icon_seg_volume.gif

Show/hide the segmentation volume

icon_overlay.gif

Show/hide the functional overlay

icon_color_scalebar.gif

Show/hide the functional color scale bar

Reconstruction Toolbar

icon_brush_circle.gif

Use a circular brush

icon_brush_square.gif

Use a square brush

icon_brush_3d.gif

Use a 3D brush

icon_snapshot_save.gif

Save a snapshot of the volume

icon_snapshot_load.gif

Restore the volume from a saved snapshot

icon_orientation_coronal.gif

Show the coronal view

icon_orientation_horizontal.gif

Show the horizontal view

icon_orientation_sagittal.gif

Show the sagittal view

icon_zoom_out.gif

Zoom out

icon_zoom_in.gif

Zoom in

icon_cursor_save.gif

Save the cursor location

icon_cursor_goto.gif

Load the cursor location

icon_linked_cursors.gif

Link the cursors between views

Underneath the toolbars is an area divided into halves. Each half displays information about the cursor (left half) or mouse location (right half). This area expands downwards as more data types are loaded and have information that needs to be displayed.

Additionally, the coordinate displays here are editable. If you enter coordinates into the appropriate field and press enter, the cursor will move to that location.