[FieldTrip] Parcellate the reconstructed source time series

[Neeraj kumar]

Dear Schoffelen,

Thank you for your reply and sorry for the vague question. I did look for
the options you suggested in your last mail. I'm facing following issues
with them:

1. For "ft_sourceparcellate" our functional data must be in the same as our
atlas. For that, we need to interpolate the functional data to the atlas.
However, the problem is that 'ft_sourceinterpolate'  is interpolating only
"pow" and "coh" not "mom" (source time course ). In the documentation also
(
http://www.fieldtriptoolbox.org/tutorial/networkanalysis/#connectivity-analysis-and-parcellation
)
they are interpolating 'Coh' only, thus parcellating only coherence.

2. I also tried to use the source model (sourcemodel_4k.mat) and
headmodel (hdm.mat) provided at this link (
ftp://ftp.fieldtriptoolbox.org/pub/fieldtrip/tutorial/networkanalysis/) to
prepare leadfield but the headmodel is not compatible for  EEG.

My final goal is to perform 'ft_connectivityanalysis(cfg, data)', where
'data' contains time series of all parcellated roi. It would be very
helpful if you can help me with that.

Thank you
Neeraj




On Sun, 24 Feb 2019 at 01:27, Schoffelen, J.M. (Jan Mathijs) <
jan.schoffelen at donders.ru.nl> wrote:

> Could you be a bit more specific in your question? Right now, based on the
> quality of your question, it seems as if you haven’t spent much time
> searching the documentation yourself. For instance,
> http://www.fieldtriptoolbox.org/tutorial/networkanalysis/ would already
> give you some directions how to ‘parcellate’ your source level data. Also,
> if you look for ‘ft_sourceparcellate’ you’ll probably be able to sort out
> how to do it.
>
> Jan-Mathijs
>
>
> On 22 Feb 2019, at 14:51, Neeraj kumar <neeraj750kumar at gmail.com> wrote:
>
> Dear Schoffelen,
>
> Thank you for your answer. But I'm still confused about how to get
> parcellated source time series in fieldtrip. I have  1sec time series for
> around 6000  grids.
>
> Neeraj
>
> On Fri, 22 Feb 2019 at 17:46, Schoffelen, J.M. (Jan Mathijs) <
> jan.schoffelen at donders.ru.nl> wrote:
>
>>
>> I want to parcellate the reconstructed source time series (~ 1000ms).
>> I have moments in source.avg.mom for around 6000 grids.
>>
>> Additionally, do I need to perform some normalization on time series
>> before or after parcellation to perform network analysis?
>>
>>
>> Well, at least you should compute a metric between pairs of time series
>> that can be subjected to a network analysis. Whether or not this needs
>> ‘some normalization’ depends on what you exactly want to achieve.
>>
>> Best wishes,
>> Jan-Mathijs
>>
>>
>>
>>
>>
>> J.M.Schoffelen, MD PhD
>> Senior Researcher, VIDI-fellow - PI, language in interaction
>> Telephone: +31-24-3614793
>> Physical location: room 00.028
>> Donders Centre for Cognitive Neuroimaging, Nijmegen, The Netherlands
>>
>>
>>
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>> https://doi.org/10.1371/journal.pcbi.1002202
>>
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