DS004346: meg dataset, 1 subjects#
FLUX: A pipeline for MEG analysis
Citation: Oscar Ferrante, Ling Liu, Tamas Minarik, Urszula Gorska, Tara Ghafari, Huan Luo, Ole Jensen (2022). FLUX: A pipeline for MEG analysis. 10.18112/openneuro.ds004346.v1.0.8
1-participant MEG dataset — FLUX: A pipeline for MEG analysis.
Quickstart#
Install
pip install eegdash
Access the data
from eegdash.dataset import DS004346
dataset = DS004346(cache_dir="./data")
# Get the raw object of the first recording
raw = dataset.datasets[0].raw
print(raw.info)
Filter by subject
dataset = DS004346(cache_dir="./data", subject="01")
Advanced query
dataset = DS004346(
cache_dir="./data",
query={"subject": {"$in": ["01", "02"]}},
)
Iterate recordings
for rec in dataset:
print(rec.subject, rec.raw.info['sfreq'])
If you use this dataset in your research, please cite the original authors.
BibTeX
@dataset{ds004346,
title = {FLUX: A pipeline for MEG analysis},
author = {Oscar Ferrante and Ling Liu and Tamas Minarik and Urszula Gorska and Tara Ghafari and Huan Luo and Ole Jensen},
doi = {10.18112/openneuro.ds004346.v1.0.8},
url = {https://doi.org/10.18112/openneuro.ds004346.v1.0.8},
}
About This Dataset#
Ferrante, O., Liu, L., Minarik, T., Gorska, U., Ghafari, T., Luo, H., & Jensen, O. (2022). FLUX: A pipeline for MEG analysis. NeuroImage, 253, 119047. https://doi.org/10.1016/j.neuroimage.2022.119047
Appelhoff, S., Sanderson, M., Brooks, T., Vliet, M., Quentin, R., Holdgraf, C., Chaumon, M., Mikulan, E., Tavabi, K., Höchenberger, R., Welke, D., Brunner, C., Rockhill, A., Larson, E., Gramfort, A. and Jas, M. (2019). MNE-BIDS: Organizing electrophysiological data into the BIDS format and facilitating their analysis. Journal of Open Source Software 4: (1896). https://doi.org/10.21105/joss.01896 Niso, G., Gorgolewski, K. J., Bock, E., Brooks, T. L., Flandin, G., Gramfort, A., Henson, R. N., Jas, M., Litvak, V., Moreau, J., Oostenveld, R., Schoffelen, J., Tadel, F., Wexler, J., Baillet, S. (2018). MEG-BIDS, the brain imaging data structure extended to magnetoencephalography. Scientific Data, 5, 180110. https://doi.org/10.1038/sdata.2018.110
References
Cohort#
Dataset Statistics#
Age distribution by gender (n=1, range 44–44 yr, mean 44.0 yr)
Channel counts: 343 ch (n=2 recordings)
Sampling frequencies: 1000.0 Hz (n=2 recordings)
Total recording duration: 48 min
Signal · Electrodes & live trace#
Live trace viewer — sub-01 · ses-01 · task-SpAtt · run-02
Showing one representative recording out of
1 subjects and 3 recordings in this dataset.
Browse the full set on OpenNeuro;
drop any other _meg.{set,edf,bdf,vhdr} file onto the
viewer (or pass ?meg=<url>) to inspect it.
Electrode layout — MEG · 306 sensors — 306 channels
NEMAR Processing Statistics#
The plots below are generated by NEMAR’s automated EEG pipeline. The histogram shows pipeline success for data cleaning and ICA decomposition, the percentage of data frames and EEG channels retained after artefact removal, line noise per channel (RMS, dB), and the age/gender distribution of participants.
HED event descriptors word cloud
Manifest#
File Explorer#
Browse the BIDS file structure of this dataset. Records are fetched on demand from the EEGDash catalog the first time you open the explorer.
Full dataset metadata table
Dataset ID |
|
Title |
FLUX: A pipeline for MEG analysis |
Author (year) |
|
Canonical |
— |
Importable as |
|
Year |
2022 |
Authors |
Oscar Ferrante, Ling Liu, Tamas Minarik, Urszula Gorska, Tara Ghafari, Huan Luo, Ole Jensen |
License |
CC0 |
Citation / DOI |
|
Source links |
OpenNeuro | NeMAR | Source URL |
Copy-paste BibTeX
@dataset{ds004346,
title = {FLUX: A pipeline for MEG analysis},
author = {Oscar Ferrante and Ling Liu and Tamas Minarik and Urszula Gorska and Tara Ghafari and Huan Luo and Ole Jensen},
doi = {10.18112/openneuro.ds004346.v1.0.8},
url = {https://doi.org/10.18112/openneuro.ds004346.v1.0.8},
}
API Reference#
eegdash.datasetEEGDashDatasetDS004346 · Ferrante2022eegdash/dataset/registry.py · [source ↗]- class eegdash.dataset.DS004346(cache_dir: str, query: dict | None = None, s3_bucket: str | None = None, **kwargs)[source]#
FLUX: A pipeline for MEG analysis
- Study:
ds004346(OpenNeuro)- Author (year):
Ferrante2022- Canonical:
—
Also importable as:
DS004346,Ferrante2022.Modality:
meg; Experiment type:Attention; Subject type:Healthy. Subjects: 1; recordings: 3; tasks: 1.- Parameters:
cache_dir (str | Path) – Directory where data are cached locally.
query (dict | None) – Additional MongoDB-style filters to AND with the dataset selection. Must not contain the key
dataset.s3_bucket (str | None) – Base S3 bucket used to locate the data.
**kwargs (dict) – Additional keyword arguments forwarded to
EEGDashDataset.
- data_dir#
Local dataset cache directory (
cache_dir / dataset_id).- Type:
Path
Notes
Each item is a recording; recording-level metadata are available via
dataset.description.querysupports MongoDB-style filters on fields inALLOWED_QUERY_FIELDSand is combined with the dataset filter. Dataset-specific caveats are not provided in the summary metadata.References
OpenNeuro dataset: https://openneuro.org/datasets/ds004346 NeMAR dataset: https://nemar.org/dataexplorer/detail?dataset_id=ds004346 DOI: https://doi.org/10.18112/openneuro.ds004346.v1.0.8 NEMAR citation count: 0
Examples
>>> from eegdash.dataset import DS004346 >>> dataset = DS004346(cache_dir="./data") >>> recording = dataset[0] >>> raw = recording.load()
- __init__(cache_dir: str, query: dict | None = None, s3_bucket: str | None = None, **kwargs)[source]#
- save(path: str, overwrite: bool = False, offset: int = 0)[source]#
Save datasets to files by creating one subdirectory for each dataset:
path/ 0/ 0-raw.fif | 0-epo.fif description.json raw_preproc_kwargs.json (if raws were preprocessed) window_kwargs.json (if this is a windowed dataset) window_preproc_kwargs.json (if windows were preprocessed) target_name.json (if target_name is not None and dataset is raw) 1/ 1-raw.fif | 1-epo.fif description.json raw_preproc_kwargs.json (if raws were preprocessed) window_kwargs.json (if this is a windowed dataset) window_preproc_kwargs.json (if windows were preprocessed) target_name.json (if target_name is not None and dataset is raw)
- Parameters:
path (str) –
- Directory in which subdirectories are created to store
-raw.fif | -epo.fif and .json files to.
overwrite (bool) – Whether to delete old subdirectories that will be saved to in this call.
offset (int) – If provided, the integer is added to the id of the dataset in the concat. This is useful in the setting of very large datasets, where one dataset has to be processed and saved at a time to account for its original position.
BaseDataset from braindecode — windowed via create_windows_from_events.braindecodeDataLoader; supports parallel workers and on-the-fly augmentations.pytorchdatasets.load_dataset("EEGDash/ds004346").huggingface
Find datasets with the EEGDash APIQuery the catalogue, filter by task or modality, list candidates.
Load one EEG recordingResolve a single record to an MNE Raw with channels and events.
EEG recording to PyTorch DataLoaderWrap braindecode windows in a DataLoader for model training.
Preprocess EEG and create windowsFilter, resample, epoch — and persist the windowed dataset.
Save and reload prepared dataCache a windowed dataset to disk and reattach it without recompute.
Download a dataset locallyPrefetch BIDS files to a local cache and validate the layout.Swap any load_dataset(...) call for ds004346 to reproduce the tutorial on this dataset.
Citation
Oscar Ferrante, Ling Liu, Tamas Minarik, Urszula Gorska, Tara Ghafari, … (2022). FLUX: A pipeline for MEG analysis. 10.18112/openneuro.ds004346.v1.0.8
Provenance
¹Contributed to openneuro in BIDS format.
²Curated & ingested by the EEGDash catalog; see CITATION.cff for canonical reference.
³Persistent identifier: 10.18112/openneuro.ds004346.v1.0.8.
See Also#
eegdash.dataset.EEGDashDataseteegdash.dataset