labeling randomly parcellated brain

Tanveer Talukdar — Wed, 24 Sep 2014 17:42:41 GMT

Hi, I am trying to use the parcel_naming.py function for a brain that has been parcellated randomly using the Spatially Constrained Parcellation Toolbox. (I did use the sample data set available in the website). In the sample command below, what do the numeric values respresent?

python parcel_naming.py tcorr05_2level_all.nii.gz \
tcorr05_2level '50,100,150,200'

Also, after running the parcel_naming.py function on the randomly generated brain using the command:

> python parcel_naming.py rm_ones_cluster_100.nii.gz rm_ones_cluster_100 '100'

I get the following error:
****************************
[100]
../parcel_naming.py called with rm_ones_cluster_100.nii.gz, rm_ones_cluster_100, 100
Read in the parcellation results rm_ones_cluster_100.nii.gz
(47, 56, 46)
1
Traceback (most recent call last):
File "../parcel_naming.py", line 226, in
main()
File "../parcel_naming.py", line 184, in main
if len(parcel_vals) != np.shape(parcels_img)[3]:
IndexError: tuple index out of range
*******************************

Any help would be appreciated.

Thanks!

Tanveer

Welcome to Help

Christian Haselgrove — Tue, 30 Nov 2010 22:25:59 GMT

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NITRC Spatially Constrained Parcellation Forum: help

labeling randomly parcellated brain

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