[FieldTrip] LCMV returns no time series?

[Peter Goodin]

Hi Joram and Sarang,

Thanks very much for the advice and to you Sarang for the new functionality and viewer!

Peter

On 16 Jun 2016 00:59, "Sarang S. Dalal" <sarang at cfin.au.dk> wrote:

Hi Peter,


If you've used the 'lcmv' method for ft_sourceanalysis, you ought to have the time series already contained in source.avg.mom.


I've been working a lot lately on improving the LCMV functionality, but unfortunately haven't had a chance to document much yet. Especially if you are not contrasting different conditions, you might want to try these parameters:

cfg.lcmv.weightnorm   = 'nai';  % this is a new option :-)
cfg.lcmv.fixedori     = 'yes';

I also prefer to turn off reducerank, but YMMV:
cfg.lcmv.reducerank   = 'no';



Finally I've also contributed a viewer that will greatly help visualizing your virtual time series together with the MRI. You can find it in the latest distributions of FieldTrip under fieldtrip/contrib/nutmegtrip. You'll also need a full version of SPM8 in your path (the external in FieldTrip doesn't have all the necessary functions).


You​​ can use it like this:

cfg = [];

cfg.mripath = '/path/to/mri/nii'  % must be in nifti (nii) format

cfg.funparameter = 'avg.mom'

% cfg.atlas = ft_read_atlas('ROI_MNI_V4.nii'); % [optional] you can get atlas labels, if your MRI and grid points are based on the MNI grid
nmt_sourceplot_spm8(cfg,ft_convert_units(source,'mm'));

Cheers,
Sarang


________________________________
From: fieldtrip-bounces at science.ru.nl <fieldtrip-bounces at science.ru.nl> on behalf of Peter Goodin <pgoodin at swin.edu.au>
Sent: Wednesday, June 15, 2016 3:32 PM
To: FieldTrip discussion list
Subject: [FieldTrip] LCMV returns no time series?


Hi FieldTrip list,

I'm using LCMV on averaged data (covariancewindow='all') but find the returned source estimates only have a single point. Is there a way to specify the analysis returns the time series for each grid point?

Thanks,

Peter
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