lmpick us a tool to visualize iso-surfaces in volume data and to pick landmarks in these data sets.
After starting the program mia-lmpick The main screen of the software looks like this:
To load a volume data set go to File|Load Volume to select a file. Currently, the only supported file format for volume data sets is the Vista file format, you can use mia-3dimagefilter to convert volume data from other [Supported file types] to a Vista Volume. After loading the volume, the 3D view can be manipulated by using the mouse:
In addition, the iso-value for selecting the intensity can be changed by the scroll bar left to the view. After some adjustment a view like the one below can be obtained.
Now, by right-clicking in the 3D view, new landmarks can be defined and already defined landmarks can be set. If no landmark is selected in the landmark list to the right, a landmark can only be added and the user is prompted to enter a name. After confirmation, the landmark is stored in the list. In addition to the name and its location, the landmark also carries the viewing information and the iso-value used for visualization. When selection a landmark in the list this information will be restored. Landmarks will usually be indicated by a yellow sphere in the 3D view, and, as a blue sphere if it is selected in the landmark list. Landmarks can also be added. deleted and there name changed via a context menu provided after right-clicking in the landmark list. The landmark list shows name and, if set 3D coordinates, otherwise the value unknown for each defined landmark.
Apart from the display of the landmark list, the right panel offers the possibility to load ans store landmark sets. The landmark set itself is stored in a XML file. The camera in the tool bar provides the shortcut to take a snapshot of the 3D view. The snapshots are stored in the current working directory and for each session, the files start with the number 0000.png. The second snapshot button enables taking a snapshot each time a landmark is set.
If the landmarks are set with the snapshot option enabled, the stored landmark records will also contain the absolute file path of the created snapshot image. If the so created landmark set is loaded later, for each landmark that also provides an image, the center part of the image is displayed below the landmark list providing an information about the anatomical location of the landmark.
Acknowledgements
