on004998
NEMAR copy of ds004998

Exploring the electrophysiology of Parkinson's disease - magnetoencephalography combined with deep brain recordings from the subthalamic nucleus.

This dataset contains simultaneous magnetoencephalography (MEG) and subthalamic nucleus local field potential (STN LFP) recordings from externalized deep brain stimulation (DBS) patients with Parkinson's disease. Recordings were acquired with and without dopaminergic medication during rest, static forearm extension (hold), and self-paced fist-clenching (move). The project aimed to characterize basal ganglia-cortex loop neurophysiology and how it is modulated by movement and medication.

MEG Zarr
Issues GitHub OpenNeuro ds004998

Download this dataset

dataset 161.8 GB exceeds 100.0 GB archive limit; use direct download. Use one of the streaming methods below — all resumable. Full download guide →

  1. NEMAR CLI recommended

    Pulls the pinned version + annexed data and resumes cleanly. Install nemar-cli → 

    nemar dataset download on004998
  2. DataLad

    Clone the dataset repo and fetch file content on demand. Docs → 

    datalad clone https://github.com/nemarDatasets/on004998 on004998
cd on004998 && datalad get .
  3. git-annex

    Plain git + git-annex against the dataset repo. Docs → 

    git clone https://github.com/nemarDatasets/on004998 on004998
cd on004998 && git annex get .
  4. Direct files (wget / curl / rclone)

    Every file with a stable, range-resumable URL from the manifest. Needs curl, jq, wget (or rclone/aria2c). Docs → 

    curl -s https://data.nemar.org/on004998/v1.0.0/manifest.json | jq -r '.[].bytes_url' > urls.txt
wget -xc -i urls.txt

Compute on this dataset

Two routes today, with a third (in-browser one-click submission) landing soon.

  1. NeuroScience Gateway (NSG) portal.

    NSG runs EEGLAB / Brainstorm / MNE pipelines on supercomputing time donated by SDSC. Create an account, point a job at this dataset's S3 prefix (s3://nemar/on004998), and submit.
    nsgportal.org →

  2. Local processing with nemar-cli.

    Pull the dataset to your machine and run any toolbox locally. Honors the published version pinning. 

    npm install -g nemar-cli
nemar dataset clone on004998
cd on004998 && nemar dataset get
  3. Just the files.

    rclone, aria2c, or any HTTPS client works against data.nemar.org/on004998/ — the manifest carries presigned S3 URLs.

Direct compute access is coming soon. One-click NSG submission from this page is scoped for a follow-up phase. Tracked on nemarOrg/website#6.

Citations

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    Files

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    Signal viewer
    How to use the data (for agentic research) license, citation, download commands, Zarr access

    What it is

    Modalities
    MEG
    Participants
    20
    Size
    162 GB
    Tasks
    HoldL, HoldR, MoveL, MoveR, Rest, noise

    License and terms

    License
    CC0
    Recommended citation
    Rassoulou, F., Steina, A., Hartmann, C. J., Vesper, J., Butz, M., Schnitzler, A., & Hirschmann, J. (2026). Exploring the electrophysiology of Parkinson's disease - magnetoencephalography combined with deep brain recordings from the subthalamic nucleus. (Version v1.0.0) [Data set]. NEMAR. https://doi.org/10.82901/nemar.on004998
    Reference 1
    https://doi.org/10.21105/joss.01896
    Reference 2
    https://doi.org/10.1038/sdata.2018.110

    Where the bytes are

    Latest version (always current)
    https://data.nemar.org/on004998/latest/
    This version (v1.0.0)
    https://data.nemar.org/on004998/v1.0.0/

    How to download

    The dataset
    nemar dataset download on004998 Clones and fetches in one step. Content under stimuli/ and derivatives/ is skipped by default because those trees can be large; add --stimuli --derivatives for the whole thing.
    A subset, one step
    nemar dataset download on004998 --subjects sub-01,02 Also filters by --sessions, --tasks, --runs, --datatypes, --include and --exclude.
    A subset, step 1
    nemar dataset clone on004998 Clones git-annex pointers only; fetches no file content. Creates ./on004998.
    A subset, step 2
    cd on004998 The get command below reads the clone's annex, so it only works from inside the clone.
    A subset, step 3
    nemar dataset get <files> Pulls the files you actually need. Skips stimuli/ and derivatives/ unless the path you ask for is under one of them.
    One small file
    https://data.nemar.org/on004998/v1.0.0/participants.tsv A direct HTTPS fetch works for any single file.

    Assess fit without downloading

    Participants table
    https://data.nemar.org/on004998/v1.0.0/participants.tsv
    Dataset description
    https://data.nemar.org/on004998/v1.0.0/dataset_description.json
    Directory listing
    https://data.nemar.org/on004998/v1.0.0/?format=json
    Catalog record
    https://api.nemar.org/datasets/on004998

    Working with the Zarr copy

    1. Start at the index
    https://zarr.nemar.org/on004998/zarr/index.json The mandatory entry point. Never hardcode a bucket path.
    2. Pick a store entry
    stores[].zarr, stores[].groups[].name These two fields exist in every index format version, so a recipe that keys on them works against the whole catalog while the back conversion is still in flight.
    3. Build the store URI
    s3://nemar/on004998/zarr/{store.zarr} Derivable from the store entry alone. An index at format_version 3 or later also publishes contract_base, data_base and s3_uri; use them when they are there, never require them.
    4. Open the store anonymously
    zarr.open_group(store=..., mode="r", zarr_format=3) Anonymous FsspecStore.from_url in region us-east-2, no credentials. zarr_format=3 is required: without it zarr-python probes for Zarr v2 sidecars, and because anonymous ListBucket is denied, S3 answers a missing key with 403 rather than 404 and the open raises.
    5. Read the level-0 array
    root[store.groups[0].name]["0"] Level 0 is the full-rate signal. Never read a view/ array for inference; those exist for display.
    6. Dequantize the samples
    physical = digital * scale + offset scale and offset are attributes of the level-0 array, one entry per channel; the unit is on the group's channels attribute.
    7. Slice, don't download
    signal[0:4, 0:500] Stream a window of channels and samples; download only when you will touch most of the array.
    8. Know the HTTP contract
    index.json Only index.json is always proxied and edge-cached. A plain GET for a store object, manifest.json or events.parquet 302s to the public S3 object for non-browser clients, so follow redirects, and HEAD is never redirected.
    9. Read the attribution before reuse
    root.attrs["nemar"] The store carries its own dataset id, DOI, license, citation and source commit.
    10. Filter for pipelines
    has_zarr=1 This is the converted filter. has_zarr_verified is the stricter one, and its result set can be empty until the daily fidelity sweep reaches a dataset; verification is reported, never a precondition for serving (nemar-cli ADR 0005).