Search found 14 matches

by ruslana
Fri Aug 04, 2017 5:49 pm
Forum: AIMS
Topic: Custom node attributes are not persistent
Replies: 1
Views: 2920

Custom node attributes are not persistent

Hello dear BrainVisa experts! I am trying to add a new custom attribute to a graph node (using PyAims). I tried to add the attribute to the dictionary: node['my_attribute_key'] = some_value This however, works only while I am in the same session. I.e. later in my code I can successfully access node[...
by ruslana
Wed Mar 29, 2017 4:59 pm
Forum: AIMS
Topic: Merging sulcal segments with AIMS results in inconsistent features
Replies: 2
Views: 3555

Re: Merging sulcal segments with AIMS results in inconsistent features

Denis,
Thanks a lot for your reply. It works now.
Regards,
Ruslana.
by ruslana
Thu Mar 23, 2017 9:10 pm
Forum: AIMS
Topic: Merging sulcal segments with AIMS results in inconsistent features
Replies: 2
Views: 3555

Merging sulcal segments with AIMS results in inconsistent features

Hello, I am trying to merge a few nodes in cortical graph with AIMS. Here is the procedure I am following: 1. merge mesh from the segments (using aims.SurfaceManip.meshMerge) 2. assign the merged mesh to one of the nodes (aims.GraphManip.storeAims) and remove all other nodes (graph.removeVertex) 3. ...
by ruslana
Tue Jan 10, 2017 4:59 pm
Forum: BrainVISA
Topic: Variability of cortical folding graphs produced by Morphology 2015 pipeline
Replies: 2
Views: 2659

Re: Variability of cortical folding graphs produced by Morphology 2015 pipeline

Denis,
Thanks a lot for clarification. It helps a lot!
Regards,
Ruslana.
by ruslana
Tue Jan 10, 2017 3:50 pm
Forum: BrainVISA
Topic: Variability of cortical folding graphs produced by Morphology 2015 pipeline
Replies: 2
Views: 2659

Variability of cortical folding graphs produced by Morphology 2015 pipeline

Hi, I am trying to understand the variability in results of Morphology 2015 pipeline. I have processed the same MRI scan a few times using exactly the same parameters and options . Then, I opened the produced cortical fold graphs in the viewer. Well, after a very brief look I have seen that the grap...
by ruslana
Fri Oct 07, 2016 4:52 pm
Forum: BrainVISA
Topic: Multiple scans per visit - where to start???
Replies: 3
Views: 2634

Re: Multiple scans per visit - where to start???

Denis, Thanks a lot for your reply. Yes, you understood correct - I do have longitudinal acquisitions, with several scans for each timepoint. I think using the acquisition field to store both timepoint and scan, indeed may be a good solution to try. My other concern is, however, if the BrainVisa sup...
by ruslana
Thu Oct 06, 2016 9:14 pm
Forum: BrainVISA
Topic: Multiple scans per visit - where to start???
Replies: 3
Views: 2634

Multiple scans per visit - where to start???

Hi all, I have a dataset with multiple scans per visit, and I need help to process this data with BrainVisa. As far as I understand, the scans from the same visit should be averaged and co-registered with motion correction. I was trying to import the data as is, but was not sure how to handle this -...
by ruslana
Tue May 17, 2016 7:52 pm
Forum: AIMS
Topic: How to split a cortical segment? Please help!
Replies: 6
Views: 19136

Re: How to split a cortical segment? Please help!

Denis,
Thanks you very much!
This worked.
Ruslana.
by ruslana
Mon May 16, 2016 6:57 pm
Forum: AIMS
Topic: Anatomist shows cortical folds graph differently after using aims.write
Replies: 1
Views: 3689

Anatomist shows cortical folds graph differently after using aims.write

Hello, I have a question regarding saving cortical fold graph with pyAims. I tried to read and then save the graph running the following simple code: graph = aims.read(input_graph_file) aims.write(graph, output_graph_file) Created arg file is identical to the original one (I compared them using a so...
by ruslana
Mon May 16, 2016 4:19 pm
Forum: AIMS
Topic: How to split a cortical segment? Please help!
Replies: 6
Views: 19136

Re: How to split a cortical segment? Please help!

Denis, Thanks a lot for your help. It is highly appreciated! I was trying to call a splitVertex method with one or few points for second argument. It worked fine with only one point, but when I tried to send a list of points, it failed. Here is an error I get: TypeError: FoldArgOverSegment.splitVert...
by ruslana
Tue May 10, 2016 10:02 pm
Forum: AIMS
Topic: How to split a cortical segment? Please help!
Replies: 6
Views: 19136

Re: How to split a cortical segment? Please help!

Denis, Thank you very much for your detailed instructions. I was able to perform all the steps manually. However, I would now like to automate them in python using AIMS library. In documentation, I found a class aims::FoldArgOverSegment that seems to have exactly the functionality I am looking for (...
by ruslana
Mon May 02, 2016 8:30 pm
Forum: AIMS
Topic: How to split a cortical segment? Please help!
Replies: 6
Views: 19136

How to split a cortical segment? Please help!

Hello guys, I have noticed that when cortical fold has a Y pattern, sometimes there are two segments, and sometimes there are three segments (see images) in a cortical graph. I don't have any neurological background, so please forgive me my ignorance. But I am interested to understand if there is an...
by ruslana
Thu Apr 07, 2016 3:01 pm
Forum: AIMS
Topic: Need help to interpret Cortical fold morphometric attributes
Replies: 2
Views: 4226

Re: Need help to interpret Cortical fold morphometric attributes

Denis,

Great thank for your reply.
It helps a lot!!!

Ruslana.
by ruslana
Tue Apr 05, 2016 4:37 pm
Forum: AIMS
Topic: Need help to interpret Cortical fold morphometric attributes
Replies: 2
Views: 4226

Need help to interpret Cortical fold morphometric attributes

Hi all, I am looking for any documentation regarding cortical fold attributes (as well as edge attributes). I read a cortical graph by using aims library in python, and get a list of folds - each of them has a list of attributes attached. Some attributes are intuitive and easy to interpret, but othe...

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