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| == Introduction == ---- <<BR>> |
= Introduction = Brainstorm is a collaborative open-source Matlab application dedicated to magnetoencephalography (MEG) and electroencephalography(EEG) data visualization, processing and cortical source estimation. <<BR>>Our intention is to make a comprehensive set of tools available to the scientific community involved in MEG/EEG experimental research.<<BR>>For physicians and researchers, the interest of this software package resides in its rich and intuitive graphic interface, which does not require any programming knowledge. |
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| !BrainStorm is an integrated free Matlab toolkit dedicated to '''Magnetoencephalography''' (MEG) and '''Electroencephalography''' (EEG) data visualization and processing. Our intention is to make a comprehensive set of tools available to the scientific community involved in MEG/EEG experimental research. | == What you can do with Brainstorm == * Import MEG / EEG recordings from the most popular file formats ([[FileFormats|list here]]) |
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| ---- '''BrainStorm features include:''''''[[BrainStorm/brainstorm/TutorialImportCTFData.html]]''' |
* Pre-processing: * Epoching * Averaging * Frequency filtering * Resampling * Noise covariance estimation * Manual definition of bad channels and bad epochs |
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| * [[BrainStorm/brainstorm/TutorialVisualizeData.html|Translation routines to get the user data into the BrainStorm database - Import filters include translators of]][[http://www.ctf.com/|CTF Systems Inc.]], and soon, [[http://www.neuromag.com/|Neuromag]] and [[http://www.biomagtech.com/index.html|BTi]] data formats (contributions are welcome); | * Data visualization: * Various time series displays * Data mapping on flat surfaces or the head envelope * Generate slides and animations * Channel selection, and manipulation of clusters of electrodes * 3D surface rendering |
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| * '''[[BrainStorm/brainstorm/TutorialVisualizeData.html|Data visualization tools]]''': Various time series displays; Data mapping on the head surface; Generate slides and animations; Channel selection; Data filtering, 3D Surface rendering * '''[[BrainStorm/brainstorm/TutorialImportMRIData.html|MRI visualization and co-registration]]''': Import MRI scans, co-registration with the MEG/EEG coordinate system; Superimpose MEG/EEG sources and f-MRI analyze results to the MRI ; Volume rendering; Scalp segmentation * '''[[BrainStorm/brainstorm/TutorialHeadModel.html|Forward modeling]] '''includes the single sphere and the overlapping sphere approaches ; realistic head models using BEM and FEM ('''new''') * '''[[BrainStorm/brainstorm/TutorialMinNorm.html|Inverse modeling]] '''features the RAP-MUSIC approach using current dipole models but also 1st-order multipole models of the primary neural current sources. Models for synchronous pairs of sources are also |
* MRI visualization and coregistration: * Analysis on individual anatomy or MNI / Colin27 brain. * Import MRI scans, from most of the existing file formats ([[FileFormats|list here]]) * Co-registration with the MEG/EEG coordinate system * Volume rendering (several display modes) * Deformation of the MNI template to fit an set of digitized head points |
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| == Requirements == !BrainStorm is written in Matlab code only, thus it can run on any operating system supported by Matlab (including Windows, Linux, MacOS...). If you have a Matlab licence: |
* Database: * Classification of recordings with three levels of definition (protocol, subject, condition/event) * Quick access to all the data in a study * Quick comparison between subjects or conditions * Graphical batching tools (apply a same process to many files in a few clicks) |
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| * You can download and run directly the BrainStorm source scripts, * Minimum Matlab version: '''7.1 (= R14-SP3)''' |
* Forward modeling: * Single sphere method * Overlapping spheres method |
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| If you do not have a Matlab licence: | * Inverse modeling: * Minimum-norm imaging of the cortical current density * dSPM * sLORETA |
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| * You can download the BrainStorm binaries corresponding to your operating system. * The executables are build using the Matlab Compiler (mcc) * They will install automatically the Matlab Component Runtime (MCR) on your computer, a freely redistributable library |
* Source display and analysis: * Surface rendering of the estimated sources * Re-projection of the sources in the MRI volume * Definition of cortical regions of interest (scouts) * Re-projection of estimated sources on a surface with a higher or lower definition * Group analysis: * Registration of individual brains on the MNI "Colin27" brain * Statistical analysis (t-tests, permutations) * Documentation and support: * Easy and automatic updates of the software * Detailed step by step tutorials for most of the common features * Active user forum == What you cannot do with Brainstorm == * Intensive pre-processing of MEG/EEG recordings (noise cancelling, artifact correction/rejection, etc.):<<BR>> => use your constructor's software, or other software solutions (MNE, EEGLab, !FieldTrip, etc.). [[Links|See here]]. * MRI segmentation:<<BR>> => use !FreeSurfer, !BrainSuite or !BrainVisa. [[Links|See here]]. |
Introduction
Brainstorm is a collaborative open-source Matlab application dedicated to magnetoencephalography (MEG) and electroencephalography(EEG) data visualization, processing and cortical source estimation.
Our intention is to make a comprehensive set of tools available to the scientific community involved in MEG/EEG experimental research.
For physicians and researchers, the interest of this software package resides in its rich and intuitive graphic interface, which does not require any programming knowledge.
What you can do with Brainstorm
Import MEG / EEG recordings from the most popular file formats (?list here)
- Pre-processing:
- Epoching
- Averaging
- Frequency filtering
- Resampling
- Noise covariance estimation
- Manual definition of bad channels and bad epochs
- Data visualization:
- Various time series displays
- Data mapping on flat surfaces or the head envelope
- Generate slides and animations
- Channel selection, and manipulation of clusters of electrodes
- 3D surface rendering
- MRI visualization and coregistration:
- Analysis on individual anatomy or MNI / Colin27 brain.
Import MRI scans, from most of the existing file formats (?list here)
- Co-registration with the MEG/EEG coordinate system
- Volume rendering (several display modes)
- Deformation of the MNI template to fit an set of digitized head points
- Database:
- Classification of recordings with three levels of definition (protocol, subject, condition/event)
- Quick access to all the data in a study
- Quick comparison between subjects or conditions
- Graphical batching tools (apply a same process to many files in a few clicks)
- Forward modeling:
- Single sphere method
- Overlapping spheres method
- Inverse modeling:
- Minimum-norm imaging of the cortical current density
- dSPM
- sLORETA
- Source display and analysis:
- Surface rendering of the estimated sources
- Re-projection of the sources in the MRI volume
- Definition of cortical regions of interest (scouts)
- Re-projection of estimated sources on a surface with a higher or lower definition
- Group analysis:
- Registration of individual brains on the MNI "Colin27" brain
- Statistical analysis (t-tests, permutations)
- Documentation and support:
- Easy and automatic updates of the software
- Detailed step by step tutorials for most of the common features
- Active user forum