Draw ROI¶
Draw ROIs is implemented as automatically drawing spheres or cubes with ROI coordinates and a header reference 3D image. The ROI coordinages and labels are sorted in a *.csv
table for output indexing purpose, while the header reference image is used to define the output image properties such as bounding box, originator, orientation, inclusive mask, and voxel size.
type: draw roi as sphere or cube
unit: unit of input radius
radius: radius of sphere or 1/2 edge length for cubic
- input type:
- manual: input coordinates seperated by ‘;’
e.g:
25,5,10;10,15,10
- file: input a csv file with 3 columns for x,y,z (the first line should be ‘x’, ‘y’ and ‘z’)
mask roi afterwards: mask generated roi using input mask
output to one roi file: instead of output one file for each roi, BRANT will generate one roi file with each roi labeled by number
ref&mask: reference and mask file. for extracting information of origin, voxel size, bounding box, etc..
out dir: directory for output
- Buttons:
- S: Save parameters of the current panel to a
*.mat
file. The*.mat
can be further loaded for the panel or be used in a script processing. - L: Load parameters from
*.mat
for the current panel. - ?: Help information.
- S: Save parameters of the current panel to a