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app-resampling
- Aurore Bussalb (Unlicensed)
APP under development private app on bl
This App aims at resample MEG/EEG signals on epoched or continuous data. To do so, the MNE Python functions raw.resample and Epoch.resample are used.
This App can be applied on EEG data when it is stored in a .fif.
The resample function is the same for epoched and raw data but the value of the pad parameter is not the same if the data is continuous or epoched.
GitHub repository
Brainlife datatype used:
For input: neuro/meg/fif and neuro/meg/fif-override
For outputs: neuro/meg/fif
Inputs of the App
Files | Format | Datatype | Description | Optional |
|---|---|---|---|---|
MEG signals | .fif | meg/fif | The data can be continuous or epoched. Notch filtering and resampling can have been applied beforehand. | No |
events file | .tsv | meg/fif-override or meg/fif | BIDS compliant tsv file containng event data | yes |
This events file can be obtained thanks to the app-get-events (if so, the file will be linked to the meg/fif-override datatype) or can be directly available with the meg.fif in the meg/fif datatype. If there are two events.tsv (one from meg/fif datatype and the other from meg/fif-override datatype, only the file from the meg/fif-override will be used (see How to use the meg/fif-override datatype).
Outputs of the App:
Files | Format | Datatype | Description | Optional |
|---|---|---|---|---|
MEG signals | .fif | meg/fif | Data after filtering | no |
events file | .tsv | meg/fif | BIDS compliant tsv file containing the events jointly resampled with the signals | yes |
Besides, in the output directory, there are the optional files that can be used in a next App (see How to run Apps one after another).
Parameters of the App
The parameters of the App correspond to the parameters passed to the Python functions used in the App. Their default values proposed in Brainlife or in config.json.example correspond to the default values of MNE Python 0.23.
Next improvements
Make sure that the App returns a good events.tsv when event.tsv comes from the
meg/fifdatatype (i.e. when the data is staged) and when the events.tsv is computed withapp-get-eventswhen the fif file is not a resting state file (i.e. when events are extracting from it).