Dealing with multiple runs when cals don't match

✉️ Mailing List Archive (read-only)
1

Dear list,

I recently ran into a situation where for various reasons (different HPI
qualities, data not successfully maxfiltered) the raw.cals factors don't
match over a couple of runs from the same subject (Neuromag).
In MNE-Python we prevent the concatenation of such raw objects.
I'm wondering how do people usually deal with this?

Best,
Denis
-------------- next part --------------
An HTML attachment was scrubbed...
URL: http://mail.nmr.mgh.harvard.edu/pipermail/mne_analysis/attachments/20140526/ee7f20a4/attachment.html

2

Dear Experts,

Recently I am trying to conduct connectivity analysis using the software
((CS; Brainwave, version 0.8.92; http://home.kpn.nl/stam7883/brainwave.html))
It only accepts CTF MEG data as input datasets.
My relatively simple question is , how to convert CTF data into .fif format?
Anyone could know which toolbox is good at network connectivity analysis?

Sorry for such simple questions to enter our wonderful maillists.

Best wishes,
Junpeng Zhang

2014-05-30

junpeng.zhang

???Denis-Alexander Engemann <denis.engemann at gmail.com>
???2014-05-26 23:32
???[Mne_analysis] Dealing with multiple runs when cals don't match
???"<Mne_analysis at nmr.mgh.harvard.edu>"<Mne_analysis at nmr.mgh.harvard.edu>
???

Dear list,

I recently ran into a situation where for various reasons (different HPI qualities, data not successfully maxfiltered) the raw.cals factors don't match over a couple of runs from the same subject (Neuromag).
In MNE-Python we prevent the concatenation of such raw objects.
I'm wondering how do people usually deal with this?

Best,
Denis
-------------- next part --------------
An HTML attachment was scrubbed...
URL: http://mail.nmr.mgh.harvard.edu/pipermail/mne_analysis/attachments/20140530/98aa8fef/attachment.html

3

hi,

My relatively simple question is , how to convert CTF data into .fif format?

you need to use mne_ctf2fiff from the mne C commands.

something like

mne_ctf2fiff --ds fname.ds --fif fname-raw.fif

Anyone could know which toolbox is good at network connectivity analysis?

what analysis do you have in mind?

MNE-Python has some. See:

http://martinos.org/mne/dev/auto_examples/index.html#connectivity-analysis-examples

HTH
Alex

4

Thank you, Alex,
Do anyone know how to convert .fif format into CTF MEG data?
Best wishes,
Junpeng

2014-06-01

junpeng.zhang

???Alexandre Gramfort <alexandre.gramfort at telecom-paristech.fr>
???2014-05-31 03:04
???Re: [Mne_analysis] How to convert CTF data into .fif format (MEG)?
???"Discussion and support forum for the users of MNE Software"<mne_analysis at nmr.mgh.harvard.edu>
???

hi,

My relatively simple question is , how to convert CTF data into .fif format?

you need to use mne_ctf2fiff from the mne C commands.

something like

mne_ctf2fiff --ds fname.ds --fif fname-raw.fif

Anyone could know which toolbox is good at network connectivity analysis?

what analysis do you have in mind?

MNE-Python has some. See:

http://martinos.org/mne/dev/auto_examples/index.html#connectivity-analysis-examples

HTH
Alex

5

Hi Junpeng,

with MNE you cannot convert fiffs back to the original format. Why would you want to do that?

Denis