[FieldTrip] extracting virtual time series in MNI space

[Sreenivasan R. Nadar, Ph.D.]

Hi Arjen,

Thank you. It worked well after I changed the template grid resolution.

Vasan

On Mon, Mar 21, 2016 at 1:37 PM, Arjen Stolk <a.stolk8 at gmail.com> wrote:

> Hi Vasan,
>
> Hard to tell based on this information, but did you copy over the
> template's dim and pos fields after normalization and/or check for
> (mis-)matches in geometric units (cm vs. mm) between grids and ROIs?
>
> Arjen
>
> 2016-03-21 10:17 GMT-07:00 Sreenivasan R. Nadar, Ph.D. <
> sreenivasan.r.nadar at gmail.com>:
>
>> Hi Arjen,
>>
>> Thank you. I tried the method give in that link with ft_volumelookup for
>> ROIs in MNI space and make a new leadfield for the ROIs  and use the
>> following commands for visualization:
>>
>> figure; hold on;
>> ft_plot_vol(headmodel, 'edgecolor', 'none', 'facealpha', 0.4);
>> ft_plot_mesh(lf_new.pos(lf_new.inside,:), 'facecolor','r');
>>
>> However, this method doesn't work properly as the grid sometime do not
>> fall in the expected anatomical location.
>>
>> -Vasan
>>
>> On Mon, Mar 21, 2016 at 12:51 PM, Arjen Stolk <a.stolk8 at gmail.com> wrote:
>>
>>> Hey Vasan,
>>>
>>> One way to do that is by 'normalizing' the subject's grid such that its
>>> points relate to specific points in MNI space. The procedure is described
>>> here:
>>> http://www.fieldtriptoolbox.org/tutorial/sourcemodel
>>>
>>> Using ft_volumelookup you can subsequently find the subject's grid
>>> points (now in MNI space) belonging to ROIs.
>>>
>>> Hope that helps,
>>> Arjen
>>>
>>> 2016-03-21 9:40 GMT-07:00 Sreenivasan R. Nadar, Ph.D. <
>>> sreenivasan.r.nadar at gmail.com>:
>>>
>>>> Hi Arjen,
>>>>
>>>> The example scripts are for on the individual "subject space". I want
>>>> to do the source analysis and also extracting time series for any ROIs in
>>>> MNI space.
>>>>
>>>> -Vasan
>>>>
>>>> On Mon, Mar 21, 2016 at 12:35 PM, Arjen Stolk <a.stolk8 at gmail.com>
>>>> wrote:
>>>>
>>>>> Hey Vasan,
>>>>>
>>>>> This page ("Extract the virtual channel time-series" section) provides
>>>>> an example:
>>>>> http://www.fieldtriptoolbox.org/tutorial/connectivity
>>>>>
>>>>> Arjen
>>>>>
>>>>> 2016-03-21 9:08 GMT-07:00 Sreenivasan R. Nadar, Ph.D. <
>>>>> sreenivasan.r.nadar at gmail.com>:
>>>>>
>>>>>> Hi All,
>>>>>>
>>>>>> Is there any standard procedure (in Fieldtrip) for extracting virtual
>>>>>> (source) time series from ROIs in Talariach or MNI space?
>>>>>>
>>>>>> Thank you
>>>>>>
>>>>>> -Vasan
>>>>>>
>>>>>>
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>>>>>
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>>
>
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