[Mne_analysis] source space vertices locations

[dgw]

rr is what you want.

In the pdf manual you would find the description in the matlab toolbox
chapter (there is a description of all the fields). I haven't been
able to find these things after the C-manual was removed from the wiki
(it is probably there, but I don't know the new layout).

hth
d

On Tue, Mar 29, 2016 at 9:33 AM, Keith Doelling <kd889 at nyu.edu> wrote:
> Thanks for bearing with me.
>
> Based on shape, It seems as though they are in either the 'nn' or 'rr' keys
> of the source space dict. Maybe this is obvious, but what is the difference
> between these?
>
> After that I can use vertno to select the correct vertices?
>
> Keith
>
> ----------------------------------
> Keith Doelling
> Dept of Psychology
> Center for Neural Science
> NYU
>
> science.keithdoelling.com
>
> On Tue, Mar 29, 2016 at 9:17 AM, dgw <dgwakeman at gmail.com> wrote:
>>
>> Hi Keith,
>>
>> The xyz coordinate for each vertex is in the source space. you can
>> just calculate anterior vs. posterior using the locations there.
>>
>> hth
>> d
>>
>> On Tue, Mar 29, 2016 at 9:13 AM, Keith Doelling <kd889 at nyu.edu> wrote:
>> >
>> > I have been working off of that example that you linked in. The
>> > mne.stc_to_label is very useful and gets me part of the way there but I
>> > still can't say which is anterior and which is posterior until I plot
>> > them.
>> > Which is fine with two labels but could get complicated with more (or to
>> > iterate across many subjects). If I can avoid the manual option, that'd
>> > be
>> > great.
>> >
>> > Really all I'm looking for is access to the spatial location of each
>> > vertex
>> > in some kind of xyz coordinate space. With that, the rest is, as you
>> > mentioned, a bit of simple self-written code but I haven't been able to
>> > find
>> > any documentation on how the vertices are sorted or structured.
>> >
>> > Thanks!
>> >
>> > Keith
>> >
>> > ----------------------------------
>> > Keith Doelling
>> > Dept of Psychology
>> > Center for Neural Science
>> > NYU
>> >
>> > science.keithdoelling.com
>> >
>> > On Tue, Mar 29, 2016 at 8:20 AM, dgw <dgwakeman at gmail.com> wrote:
>> >>
>> >> You can do this in mne_analyze by simply drawing around the ROI, and
>> >> selecting (the procedure is described in the manual). You can also do
>> >> this programmatically in the mne-python code (this is a good starting
>> >> point:
>> >>
>> >> http://martinos.org/mne/stable/auto_examples/inverse/plot_label_from_stc.html?highlight=label
>> >> ). or with a simple bit of self-written matlab/python code depending
>> >> on your needs.
>> >>
>> >> hth
>> >> d
>> >>
>> >> On Tue, Mar 29, 2016 at 7:59 AM, Keith Doelling <kd889 at nyu.edu> wrote:
>> >> > Hi all,
>> >> >
>> >> > I'm curious about how to select vertices based on their overall
>> >> > location.
>> >> > For example, say I have found two peaks in my source estimates. I
>> >> > want
>> >> > to
>> >> > build two functional labels for each. One blob is in the anterior
>> >> > half
>> >> > and
>> >> > the other is in the posterior half of the left hemisphere. Are the
>> >> > vertices
>> >> > organized in such away that I can select each blob on the basis of
>> >> > its
>> >> > overall location in the brain?
>> >> >
>> >> > Thanks in advance!
>> >> > ----------------------------------
>> >> > Keith Doelling
>> >> > Dept of Psychology
>> >> > Center for Neural Science
>> >> > NYU
>> >> >
>> >> > science.keithdoelling.com
>> >> >
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