[FieldTrip] ft_prepare_mesh seems to change segmentation layers to alphabetical order
Martin Schaefer
martin.schaefer at ki.se
Thu Apr 7 17:23:09 CEST 2022
Dear mailinglist,
I noticed that the function ft_prepare_mesh seems to change the order of the segmentation layers to alphabetical, rather than keeping the order chosen during ft_volumesegment.
This seems like it could potentially lead to a to a mismatch with the conductivity values chosen during ft_prepare_headmodel, which uses the layer order from ft_prepare_mesh.
For example, I run
cfg = [];
cfg.output = {'gray','white','csf','skull','scalp'};
mri_segmented = ft_volumesegment(cfg, mri_resliced);
followed by
cfg = [];
cfg.shift = 0.3;
cfg.method = 'hexahedral';
mesh = ft_prepare_mesh(cfg,mri_segmented);
When I then look at mesh.tissuelabel the order has changed to: {'csf'} {'gray'} {'scalp'} {'skull'} {'white'}
And if I continue to run
cfg = [];
cfg.method = 'simbio';
cfg.conductivity = [0.33 0.14 1.79 0.01 0.43]; % {'gray' 'white' 'csf' 'skull' 'scalp'}
headmodel_eeg = ft_prepare_headmodel(cfg, mesh_fem);
headmodel_eeg.tissuelabel has the same order as the mesh: {'csf'} {'gray'} {'scalp'} {'skull'} {'white'}
And I assume this means the conductivity values are mismatched.
Can someone check this?
I use the fieldtrip version from 1st of April 2022.
Best regards,
Martin
------------
Martin Schaefer | PhD Student
https://www.perceptionlab.se/
Department of Clinical Neuroscience (CNS), K8
Karolinska Institutet | 17 177 Stockholm | Nobels väg 9
martin.schaefer at ki.se<mailto:artin.arshamian at ki.se>
______________________________________
Karolinska Institutet – a Medical University
När du skickar e-post till Karolinska Institutet (KI) innebär detta att KI kommer att behandla dina personuppgifter. Här finns information om hur KI behandlar personuppgifter<https://ki.se/medarbetare/integritetsskyddspolicy>.
Sending email to Karolinska Institutet (KI) will result in KI processing your personal data. You can read more about KI’s processing of personal data here<https://ki.se/en/staff/data-protection-policy>.
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://mailman.science.ru.nl/pipermail/fieldtrip/attachments/20220407/ba9bb5ef/attachment.htm>
More information about the fieldtrip
mailing list