I wonder if it would be better to just compute the dense connectome and
then parcellate afterwards?
Peace,
Matt.
On 10/3/17, 12:02 PM, "FSL - FMRIB's Software Library on behalf of Maxwell
Bertolero" <[log in to unmask] on behalf of [log in to unmask]> wrote:
>Yes, that¡¯s what I figured.
>
>Given that, one thing I am trying to avoid is loading all of the target
>surface parcels for every seed parcel. If I don¡¯t include targets and
>instead pass all of the surface parcels as seeds, what options do I need
>to flag to generate the seed to seed matrix? I know I can reconstruct it
>in MATLAB from the coords and matrix1 files, but I haven¡¯t figured out a
>python solution, and I don¡¯t know MATLAB that well.
>
>Also, can I suppress the seeds_to* files from saving somehow? Saving
>these out takes a significant amount of time.
>
>Thanks!
>
>> On Oct 3, 2017, at 11:54 AM, Matt Glasser <[log in to unmask]> wrote:
>>
>> Thanks Bruce. On a plane in the middle of the ocean so not able to
>>check
>> so easy.
>>
>> Sounds like it is just a function of a large number of ROIs+Surfaces
>>being
>> loaded. Ideally probtrackx would function such that only a single
>>surface
>> was needed and then the much smaller ROIs could be specified separately
>> rather than the current behavior of having to have a combined
>>surface+ROI
>> for each ROI. Also the combined surface+ROI isn©öt really an official
>> GIFTI file type so other GIFTI software may not be able to understand it
>> (like Connectome Workbench).
>>
>> Matt.
>>
>> On 10/3/17, 11:34 AM, "FSL - FMRIB's Software Library on behalf of Bruce
>> Fischl" <[log in to unmask] on behalf of [log in to unmask]>
>>wrote:
>>
>>> p.s. so 10242 vertices in fsaverage5 (v=vertices, e=edges, f=faces)
>>>
>>> cheers
>>> Bruce
>>>
>>> On Tue, 3 Oct 2017,
>>> Bruce Fischl wrote:
>>>
>>>> mris_euler_number $FREESURFER_HOME/lib/bem/ic5.tri
>>>> euler # = v-e+f = 2g-2: 10242 - 30720 + 20480 = 2 --> 0 holes
>>>> F =2V-4: 20480 = 20484-4 (0)
>>>> 2E=3F: 61440 = 61440 (0)
>>>>
>>>> total defect index = 0
>>>>
>>>>> On Tue, 3 Oct 2017, Matt Glasser wrote:
>>>>>
>>>>> How many vertices is that?
>>>>>
>>>>> Matt.
>>>>>
>>>>> On 10/3/17, 8:54 AM, "FSL - FMRIB's Software Library on behalf of Max
>>>>> Bertolero" <[log in to unmask] on behalf of [log in to unmask]>
>>>>> wrote:
>>>>>
>>>>>> It is fsaverage5 resolution.
>>>>>
>>>>>
>>>>>
>>>>
>>>>
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