FieldTrip

publications

2010-03-10T10:05:52+01:00

If you have published a paper which uses FieldTrip and which is not yet listed here, feel free to add it! Just click the edit button at the top of this page. If you are looking for the papers that describe the algorithms implemented in FieldTrip, please look at the references to implemented methods.

start - shortened news

Robert Oostenveld — 2010-03-09T22:14:30+01:00

FieldTrip is a Matlab software toolbox for MEG and EEG analysis that is being developed at the Centre for Cognitive Neuroimaging of the Donders Institute for Brain, Cognition and Behaviour together with collaborating institutes. The development of FieldTrip is currently supported by funding from the BrainGain project. The FieldTrip software is released as open source under the GNU general public license.

development:realtime:buffer

Stefan Klanke — 2010-03-09T17:01:39+01:00

realtime This page documents the implementation and possible use of the FieldTrip buffer. The audience is co-developers of FieldTrip and developers of other real-time applications. The MATLAB implementation (i.e. the mex file) is by default included in the normal FieldTrip release and in the fileio toolbox. If you just want to use the FieldTrip buffer from within MATLAB, most of the information you'll find here is not relevant for you.

tutorial:scripting

Craig Richter — 2010-03-09T15:31:19+01:00

The following is intended to provide guidelines and suggestions how to set up a chain of analysis steps that makes most efficient use of your (and your computer’s) time. Much effort can be spared by some foresight and by using a structure that allows you to retrace your steps – something you will need to do, sooner or later. In addition, Fieldtrip has a certain philosophy of use. Especially for a beginner this might be implicit and at times confusing. By suggesting the following way to set up a…

faq:i_am_getting_strange_artifacts_in_figures_that_use_opacity

Robert Oostenveld — 2010-03-04T17:34:31+01:00

faq, plot I am getting strange artifacts in figures that use opacity The Matlab OpenGL renderer is very buggy when using opacity. Sometimes parts of your axes system disappear or colors are not drawn correctly, etc. , and some of these issues are especially prevalent when saving your figures as vectorized images using postscript (e.g.: *.eps).

development:multivariate

2010-03-04T14:26:50+01:00

multivariate This module is dedicated to the multivariate analysis of neuroimaging data. Contrary to other modules, it makes use of object-orientation and requires Matlab version >= 7.6.0 (R2008a). The module offers support for preprocessing, feature selection, classification, regression and reconstruction.

getting_started:realtime

Saskia Haegens — 2010-03-03T15:31:16+01:00

realtime, example With FieldTrip it is possible to analyze EEG/MEG data in real-time and to create applications for BCI, neurofeedback or for other situations in which you want to be flexible in the analysis and display of data. The real-time support in FieldTrip is not yet as mature as the other functions, so it requires a little more programming from your side.

getting_started:neuralynx

Saskia Haegens — 2010-03-03T15:29:40+01:00

neuralynx, lfp, dataformat, fixme Introduction The Neuralynx acquisition software writes a variety of file formats. * *.ncs single continuous channel file * *.nse single electrode waveform file * *.nts single stereotrode file * *.nst spike timestamps * *.ntt single tetrode file * *.nev event information

getting_started:cyberkinetics

Saskia Haegens — 2010-03-03T15:28:40+01:00

cyberkinetics, lfp, spike, dataformat FIXME This getting started guide and the read_neuroshare code are still under development, see . However, we very much welcome you to start using this functionality, and would be happy with any feedback provided.

getting_started:bti

Saskia Haegens — 2010-03-03T15:27:59+01:00

bti, 4d, meg, dataformat Introduction This page explains how to get started reading and using each of these file types in FieldTrip. Background MEG datasets obtained from a 4D-neuroimaging MEG-system are usually stored in a directory structure which looks like this:

getting_started:plexon

Saskia Haegens — 2010-03-03T15:26:13+01:00

plexon, lfp, spike, dataformat The Plexon acquisition system writes data to *.plx files. Furthermore, the Plexon software and the accompanying NeuroExplorer and OfflineSorter software can write data to *.ddt and *.nex files. Introduction FieldTrip can read Plexon data from the following file formats.

getting_started:neuromag

Saskia Haegens — 2010-03-03T15:25:19+01:00

elekta, neuromag, dataformat, MNI, headmodel, sourceanalysis Introduction All data recorded with an Elekta-Neuromag system is stored in *.fif files, see support for Neuromag and/or Elekta meg data. To load the data into Matlab you need the MNE toolbox from Matti Hämäläinen, see MNE software. Then (in matlab) you need to add the paths where the fieldtrip and mne toolboxes can be found.

getting_started:ctf

Saskia Haegens — 2010-03-03T15:04:14+01:00

ctf, meg, dataformat Introduction The following types of CTF data can be read and used in FieldTrip: * MEG/EEG and AUX data: *.res4, *.meg4, *.1_meg4, *.2_meg4, etc. * event information: *.meg4, ClassFile.cls, MarkerFile.mrk * single sphere and multi-sphere volume conduction models: *.hdm * anatomical MRI: *.mri

tutorial:multivariateanalysis

2010-03-03T14:58:29+01:00

tutorial, eeg, meg, classification, fixme Introduction The objective of this tutorial is to give an introduction to multivariate analysis of neuroimaging data. Classification methods aim to find task-related features in the data by predicting to which task single trials belong. The idea is that if the features can be used for prediction then those features must be important from the perspective of the task. Note that this is very different from classical statistical testing, where such…