Hello all,

I posted this question on the cmtk users google group, but no takers, and perhaps this is the more appropriate venue anyways.

I've been successfully using cmtk within iPython. After running connectomemapper parcellate() to get the Lausanne parcellation scheme, I get six .annot files: ?h.myaparcP1_16.annot, ?h.myaparcP17_28.annot, and ?h.myaparcP29_66.annot, for each of lh and rh.

Each of these .annot files label the entire cortical surface, but each of the 36 major anatomical regions (e.g., posteriorcingulate) for each hemisphere are further subdivided in only one of the three .annot files; the other two files use the original definition of the major region. In other words, in order to use these .annot files to work with the Lausanne sub-parcellations  for the entire cortical surface, one has to run the same procedure using each of the 3 .annot files, and then figure out which .annot file provided the desired information.

I was wondering whether it is possible to merge the three annot files to create a single .annot file for each hemisphere in which ALL of the 36 major anatomical regions have been subdivided, rather than three files containing parcellations of different subsets of these regions? Though I have been using scripts to sift through multiple sets of results to find what I'm looking for, some manual chores would be easier if I only had to work with a single file.

The fact that the same vertices are labeled in all files (but are given the macro-region label in 2 files, and the sub-parcelation label in 1 file) makes me think that it's not a simple matter of concatenating the annotation files.

Thanks,
Chris