Table of Contents
When starting to use Anatomist, you need to configure some options. The most important is to choose (or to check if several users share the same Anatomist configuration) how to display axial and coronal views : either in radiological convention or in neurological convention.
To go to preferences pannel, click on Settings and on Preferences. Let's see the different menus :
Language : default (system language) / en (english) / fr (french).
HTML browser command line : the browser that will be used to see HTML documentation (mozilla / netscape .....).
User level : basic, advanced or expert. Some features are available only in advanced or expert mode, for example flight simulator control and storage to memory transformation automatic loading.
Default referentials : this advanced option enables to choose a default referential for loaded object and for new windows independently. By clicking on the grey button, you can choose them with :
Display linked cursor : if enabled, a symbol is displayed to represent the linked cursor position when you click on a window.
Cursor shape : the menu offers several shapes to choose (arrow, cross, multicross ...). It is also possible to load a cursor (only meshes, .tri and .mesh will be displayed in 3D).
Size : set cursor size.
Cursor color : default color is red. You can choose another color.
Axial/coronal slices orientation : selection of images display convention.
Default windows size : windows zoom factor, by default the value is 1 for a volume whose voxels size is (1x1x1). So on screen, a pixel size is 1mm.
Display nice logo : enable displaying of Anatomist logo on top of the main window.
Interpolation on volumes when changing referential: on loading a referential for an image (applying a transformation) or during a fusion, the volume is resampled by a trilinear interpolation or by the closest sibling value.
Use referential / transformations information found in objects headers (SPM, NIFTI...) : if a loaded image has spm_origin, transformations, or referentials attributes in its header, it is possible to automatically load the corresponding referentials and transformations in Anatomist. See the section called “Using transformation information contained in SPM/NIFTI headers” to know more about this feature.
Assume all "scanner-based" referentials are the same: by default they are considered all different.
