Differences
This shows you the differences between two versions of the page.
— |
reference:ft_read_atlas [2018/08/23 14:43] (current) |
||
---|---|---|---|
Line 1: | Line 1: | ||
+ | ===== FT_READ_ATLAS ===== | ||
+ | |||
+ | Note that this reference documentation is identical to the help that is displayed in MATLAB when you type "help ft_read_atlas". | ||
+ | |||
+ | <html><pre> | ||
+ | <a href=/reference/ft_read_atlas><font color=green>FT_READ_ATLAS</font></a> reads an template/individual segmentation or parcellation from disk. | ||
+ | The volumetric segmentation or the surface-based parcellation can either represent | ||
+ | a template atlas (eg. AAL or the Talairach Daemon), it can represent an | ||
+ | individualized atlas (e.g. obtained from FreeSurfer) or it can represent an | ||
+ | unlabeled parcellation obtained from the individual's DTi or resting state fMRI. | ||
+ | |||
+ | Use as | ||
+ | atlas = ft_read_atlas(filename, ...) | ||
+ | or | ||
+ | atlas = ft_read_atlas({filenamelabels, filenamemesh}, ...) | ||
+ | |||
+ | Additional options should be specified in key-value pairs and can include | ||
+ | 'format' = string, see below | ||
+ | 'unit' = string, e.g. 'mm' (default is to keep it in the native units of the file) | ||
+ | |||
+ | For individual surface-based atlases from FreeSurfer you should specify two | ||
+ | filenames as a cell-array: the first points to the file that contains information | ||
+ | with respect to the parcels' labels, the second points to the file that defines the | ||
+ | mesh on which the parcellation is defined. | ||
+ | |||
+ | The output atlas will be represented as structure according to | ||
+ | <a href=/reference/ft_datatype_segmentation><font color=green>FT_DATATYPE_SEGMENTATION</font></a> or <a href=/reference/ft_datatype_parcellation><font color=green>FT_DATATYPE_PARCELLATION</font></a>. | ||
+ | |||
+ | The "lines" and the "colorcube" colormaps are useful for plotting the different | ||
+ | patches, for example using <a href=/reference/ft_plot_mesh><font color=green>FT_PLOT_MESH</font></a>. | ||
+ | |||
+ | See also <a href=/reference/ft_read_mri><font color=green>FT_READ_MRI</font></a>, <a href=/reference/ft_read_headshape><font color=green>FT_READ_HEADSHAPE</font></a>, <a href=/reference/ft_prepare_sourcemodel><font color=green>FT_PREPARE_SOURCEMODEL</font></a>, <a href=/reference/ft_sourceparcellate><font color=green>FT_SOURCEPARCELLATE</font></a>, <a href=/reference/ft_plot_mesh><font color=green>FT_PLOT_MESH</font></a> | ||
+ | </pre></html> | ||