table of contents
LIPSIA     List of local activation maxima
vblobsize
The program 'vblobsize' produces a list of activation areas ("blobs") and their sizes and locations. It detects topologically connected components after thresholding the zmap and counts the number of voxels in every component.

Example:

vblobsize -in tcgbsAC1T.v -pos 3.1 -neg -3.1 -out BtcgbsAC1T.v -minsize 81 -report AC1T_list.txt -system talairach

The output image 'tcgbsAC1T.v' displays all connected components. Their labels correspond to labels in the report file 'AC1T_list.txt'.

Only activation areas of size larger than '-minsize' are considered, where '-minsize' is given in units of mm^3. For example, if the spatial resolution is 3x3x3mm then a minsize of 81 corresponds to three voxels (81 = 3 x 27 = 3 x (3x3x3)).

The parameter '-system' determines the coordinate-system that will be printed in the list. Possible values are:


The parameter '-median' can be used to separate the left and right hemispheres. If set to 'true' then in the image center a sagittal slice of one voxel thickness will be cleared.

Caution: The use of 'vblobsize' only makes sense for registered 3D data (otherwise, Talairach coordinates are not available).



Parameters of 'vblobsize':
-help
Prints usage information.
-in
Input file. Default: (none)
-out
Output file. Default: (none)
-pos
Positive threshold on zmap. Default: 3
-neg
Negative threshold on zmap. Default: -1000
-system [ mm | voxel | talairach ]
Coordinate system. Required.
-minsize
Minimal size in mm^3 of activation areas. Default: 81 ( = 3 x 27 = 3 x (3x3x3)).
-median [ true | false ]
Whether to clear the median wall. Default: false
-report
File containing output report. Default: (none= screen output)


Max Planck Institute for Human Cognitive and Brain Sciences. Further Information: lipsia@cbs.mpg.de
Copyright © 2007 Max Planck Institute for Human Cognitive and Brain Sciences. All rights reserved.