[FieldTrip] downsampling CTF data prior to ft_preprocessing

[Vladimir Litvak]

Here it is, just in case some else will need it in the future.

#!/bin/sh
files=`ls -1Ad ${1}`

for f in $files
do
  newSingleTrialDs $f ./s_`basename $f`
  newDs -f -filter processing.cfg -resample 8  ./s_`basename $f`
./r_`basename $f`
  rm -rf ./s_`basename $f`
done




On Thu, Jan 16, 2014 at 2:51 PM, Frédéric Roux <f.roux at bcbl.eu> wrote:

> Hi Vladimir,
>
> looks like the shell-script got blocked my the mail-server.
> would you mind sending it to froux at bcbl.eu ?
>
> Thanks,
>
> Fred
>
> Frédéric Roux
>
> ----- Original Message -----
> From: "Vladimir Litvak" <litvak.vladimir at gmail.com>
> To: "FieldTrip discussion list" <fieldtrip at science.ru.nl>
> Sent: Thursday, January 16, 2014 2:28:03 PM
> Subject: Re: [FieldTrip] downsampling CTF data prior to ft_preprocessing
>
>
> [Text File:warning1.txt]
>
>
>
> Here is my old code. Actually the config file is just for filtering but I
> think you must low-pass before downsampling as it won't do it
> automatically. It might do more than you need as I also had to convert
> pseudo-epoched to continuous data.
>
>
> Vladimir
>
>
>
> On Thu, Jan 16, 2014 at 1:10 PM, Frédéric Roux < f.roux at bcbl.eu > wrote:
>
>
> Hi Vladimir,
>
> yes now I remember - newDs - will give it a try.
>
> Thanks a lot everyone for the fast and helpful comments!
>
> Fred
>
>
> ----- Original Message -----
> From: "Vladimir Litvak" < litvak.vladimir at gmail.com >
> To: "FieldTrip discussion list" < fieldtrip at science.ru.nl >
>
>
> Sent: Thursday, January 16, 2014 1:57:25 PM
> Subject: Re: [FieldTrip] downsampling CTF data prior to ft_preprocessing
>
>
>
> Dear Fred,
>
>
> The CTF command line tool is called newDs . There is a configuration file
> that you should set-up to specify that you want it to downsample. I used it
> a long time ago but I can try to find out more details if you can't figure
> it out yourself. The documentation for the function should be in CTF PDF
> files.
>
>
> Best,
>
>
> Vladimir
>
>
>
> On Thu, Jan 16, 2014 at 12:30 PM, Frédéric Roux < f.roux at bcbl.eu > wrote:
>
>
> Hi Jim, Hi Eelke,
>
> thanks for the fast response.
>
> My issue is that I would like to use ft_definetrial
> to get to my trigger events, hence the reason why
> I want to downsample the raw-data before accessing it
> with ft.
>
> But technically, I guess I should be able to write up
> my own trigger detection code. It's just more convenient
> without having to do that extra step.
>
> I thought I'd ask before doing that.
>
> In any case if anyone comes up with an idea how to do the
> downsampling on the raw-data, please let me know.
>
> Best,
> Fred
>
>
>
> Frédéric Roux
>
>
> ----- Original Message -----
> From: "J.D. Herring (Jim)" < j.herring at fcdonders.ru.nl >
> To: "FieldTrip discussion list" < fieldtrip at science.ru.nl >
> Sent: Thursday, January 16, 2014 1:22:07 PM
> Subject: Re: [FieldTrip] downsampling CTF data prior to ft_preprocessing
>
> Hi Fred,
>
>
> If memory is an issue you could try reading-in the data per channel,
> resample, and appending afterwards.
>
> Best,
>
> Jim
>
>
> -----Original Message-----
> From: fieldtrip-bounces at science.ru.nl
> [mailto: fieldtrip-bounces at science.ru.nl ] On Behalf Of Frédéric Roux
> Sent: donderdag 16 januari 2014 13:00
> To: FieldTrip discussion list
>
>
> Subject: [FieldTrip] downsampling CTF data prior to ft_preprocessing
>
> Dear all,
>
> does anyone know of a good method to downsample MEG-data acquired with a
> CTF system before reading it into Matlab/fieldtrip.
>
> I remember that there is a command-line tool provided by CTF which can do
> preprocessing, but I don't remember exactly if it does the job.
>
> Or does anyone know of a good alternative solution?
>
> Best,
> Fred
>
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