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https://github.com/remi-gau/avt_analysis
Code to analyze audio-visual-tactile high-resolution 7T data
https://github.com/remi-gau/avt_analysis
cbs-tools fmri fmri-data-analysis fmri-preprocessing fmri-task-based-analysis high-resolution neuroimaging spm
Last synced: 15 days ago
JSON representation
Code to analyze audio-visual-tactile high-resolution 7T data
- Host: GitHub
- URL: https://github.com/remi-gau/avt_analysis
- Owner: Remi-Gau
- License: gpl-3.0
- Created: 2018-07-31T11:59:13.000Z (over 6 years ago)
- Default Branch: master
- Last Pushed: 2024-04-09T06:42:36.000Z (7 months ago)
- Last Synced: 2024-04-09T07:40:27.871Z (7 months ago)
- Topics: cbs-tools, fmri, fmri-data-analysis, fmri-preprocessing, fmri-task-based-analysis, high-resolution, neuroimaging, spm
- Language: MATLAB
- Size: 15.2 MB
- Stars: 2
- Watchers: 3
- Forks: 1
- Open Issues: 13
-
Metadata Files:
- Readme: README.md
- License: LICENSE
Awesome Lists containing this project
README
# Audio-visual-tactile 7 tesla
Code for the analysis of the AVT fMRI high-res experiment.
## Dependencies
### fMRI and psychophysics experiment
- Presentation (?????)
- HRTF (MIT and HPC...)
- piezzo stimulator (??????)
- palamedes to analyze (?????)
### fMRI analysis
You will need matlab and SPM12 to make use of this code.
| Matlab, toolbox and other dependencies | Used version | Purpose |
| -------------------------------------------------------- | ------------ | ----------------------- |
| [Matlab](https://www.mathworks.com/products/matlab.html) | 2016a | |
| SPM12 | v6685 | preprocessing, GLM, ... |
Other functions from github and the mathwork file exchange are needed. All of
them are shipped with this repo in the `lib` folder or can be pulled from github
as submodules.
So to install all the code and its dependencies you simply to run:
```
git clone --recurse-submodules https://github.com/Remi-Gau/AVT_analysis.git
```
## Set up
When in the root folder simply run `initEnv` from the matlab prompt to add all
relevant folders to the matlab path.
### Settings
Files used to stored settings are in the following folders:
```
src/settings/
lib/laminar_tools/src/settings/
```
### Compiling mex file for PCM analysis
You might need to compile a a mex file to run the PCM if you are on Linux.
```matlab
cd(fullfile('lib', 'pcm_toolbox'))
mex traceABtrans.c
```
## Recreating figures
### For BOLD and MVPA analysis
The script `src/figures/PlotBoldProfile.m` will plot the main figures for BOLD
profile results.
## Development
```
virtualenv -p /usr/bin/python3.8 env
source env/bin/activate
pip install -r requirements.txt
pre-commit install
```