NERVE Lab Data Management

Current path for UVM VACC users: /users/a/j/ajbarrow/scratch/data

Datasets are all BIDS compliant (at least in structure), with one notable exception: .parquet files are included in addition to .tsv files where appropriate.

ABCD

6.1

Release Notes

Citation: https://doi.org/10.82525/ab4q-qr87

Notes:

  • We only maintain a subset of available ABCD data due to storage constraints. Please get in touch if there is information you’re missing.
  • Tabular data are directly from release 6.1.

In additioin to the tabular release, we have:

  • fMRI events files (BIDS format, under ./rawdata)
  • Trial-level behavioral data (BIDS format, under ./sourcedata)
ABCD/6.1/
    dairc
    └── rawdata
        ├── phenotype
        │   ├── <table_name>.json
        │   ├── <table_name>.parquet
        │   ├── <table_name>.tsv
        │   └── ...
        ├── sub-<participant>
        │   ├── ses-<event>
        │   └── ...
        ├── ...
        ├── dataset_description.json
        ├── participants.json
        ├── participants.tsv
        ├── scans.json
        ├── sessions.json
        ├── task-<experiment>_beh.json
        └── ...
    └── sourcedata
        |   ├── sub-<participant>
        │   ├── ses-<event>
        │   └── ...
    └── concat
        └── substance_use
            └── tlfb

Subjects: 11425
| session   |   func |
|:----------|-------:|
| ses-00A   |  10473 |
| ses-02A   |   7495 |
| ses-04A   |   5894 |
| ses-06A   |   3615 |

6.0

Release Notes

Citation

@misc{https://doi.org/10.82525/jy7n-g441,
  doi = {10.82525/JY7N-G441},
  url = {https://nbdc-datahub.org/abcd-release-6-0},
  author = {Jernigan,  Terry L. and Brown,  Sandra A. and Dale,  Anders M. and Tapert,  Susan F. and Sowell,  Elizabeth R. and Herting,  Megan and Laird,  Angela and Gonzalez,  Raul and Squeglia,  Lindsay and Gray,  Kevin and Paulus,  Martin P. and Aupperle,  Robin and Feldstein Ewing,  Sarah W. and Nagel,  Bonnie J. and Fair,  Damien A. and Baker,  Fiona and M\"{u}ller Oehring,  Eva and Bookheimer,  Susan Y. and Dapretto,  Mirella and Jacobus,  Joanna and Wilson,  Sylia and Banich,  Marie T. and Cottler,  Linda B. and Nixon,  Sara Jo and Ernst,  Thomas M. and Chang,  Linda and Heitzeg,  Mary M. and Sripada,  Chandra and Luciana,  Monica M. and Friedman,  Naomi and Clark,  Duncan B. and Luna,  Beatriz and Foxe,  John and Freedman,  Edward and Yurgelun-Todd,  Deborah A. and Renshaw,  Perry F. and Potter,  Alexandra and Garavan,  Hugh P. and Lisdahl,  Krista and Larson,  Christine and Bjork,  James M. and Neale,  Michael C. and Heath,  Andrew C. and Barch,  Deanna M. and Madden,  Pamela A. and Casey,  Betty J. and Baskin-Sommers,  Arielle and Gee,  Dylan},
  title = {ABCD Study(R) Data Release 6.0},
  publisher = {Lasso Informatics US Inc},
  year = {2025}
}

Note: We only maintain a subset of available ABCD data due to storage constraints. Please get in touch if there is information you’re missing.

ABCD/6.0/
    dairc
    └── rawdata
        ├── phenotype
        │   ├── <table_name>.json
        │   ├── <table_name>.parquet
        │   ├── <table_name>.tsv
        │   └── ...
        ├── sub-<participant>
        │   ├── ses-<event>
        │   └── ...
        ├── ...
        ├── dataset_description.json
        ├── participants.json
        ├── participants.tsv
        ├── scans.json
        ├── sessions.json
        ├── task-<experiment>_beh.json
        └── ...
    └── concat
        └── substance_use
            └── tlfb

HBCD

2.0

Caution

The 2.0 release is relatively large. Since we currently have space constraints, I’ll download things as needed. The HBCD 1.1 and 1.0 releases are available entirely (both tabular and file-based data).

Structure:

HBCD/2.0/
     derivatives
      └── made
     rawdata/
        phenotype/     # Tabulated Data (demographics, visit info, behavior, etc.)
        |   |__ par_visit_data.*
        |   |__ sed_basic_demographics.*
        |__ <instrument_name>.*
    ├── sub-<label>
    ├── sub-<label>
Number of Subjects: 1385
| session   |
|-----------|

1.1

Citation: https://doi.org/10.82525/mb85-d528

Caution

See release notes for changes from HBCD 1.0.

Structure:

HBCD/1.1/
|__ rawdata/ 
|   |__ phenotype/     # Tabulated Data (demographics, visit info, behavior, etc.)
|   |   |__ par_visit_data.*
|   |   |__ sed_basic_demographics.*
|   |   |__ <instrument_name>.*
|   |
|   |__ sub-<label>/   # Raw File-Based Data (MRI, EEG, etc.)
|   |   |__ sub-<label>_sessions.tsv
|   |   |__ sub-<label>_sessions.json
|   |   |__ ses-<label>/
|   |       |__ anat/
|   |       |__ dwi/
|   |       |__ eeg/
|   |       |__ fmap/
|   |       |__ func/
|   |       |__ motion/
|   |       |__ mrs/
|   |       |__ sub-<label>_ses-<label>_scans.tsv
|   |       |__ sub-<label>_ses-<label>_scans.json
|   |
|   |__ dataset_description.json
|   |__ participants.tsv
|   |__ participants.json 
|
|__ derivatives/        # Processed File-Based Data (MRI, EEG, etc.)
    |__ bibsnet/
    |__ hbcd_motion/
    |__ made/
    |__ mriqc/
    |__ nibabies/
    |__ osprey/
    |__ qmri_postproc/
    |__ qsiprep/
    |__ qsirecon/
    |__ symri/
    |__ xcp_d/

1.0

Citation:

@misc{https://doi.org/10.82525/qv5x-qx11,
  doi = {10.82525/QV5X-QX11},
  url = {https://nbdc-datahub.org/hbcd-release-1-0},
  author = {Chambers,  C and Nelson,  C and Dale,  A and Fair,  D and Smyser,  C and Acheson,  A and Bakhireva,  L and Bandoli,  G and Bell,  MA and Berry,  U and Bogdan,  R and Bosquet Enlow,  M and Coles,  C and Croff,  J and Cutting,  L and Dean,  D and DeMauro,  S and Engel,  S and Fox,  N and Gahagan,  S and Gao,  W and Garavan,  H and Georgieff,  M and Graham,  A and Grant,  E and Gregory,  K and Gurka,  K and Gurka,  M and Hays Grudo,  J and Hosig,  K and Howell,  B and Huang,  H and Johnson,  S and Jones Harden,  B and Kable,  J and Kaufman,  J and Levitt,  P and Lin,  W and McKelvey,  L and Merhar,  S and Morris,  A and Nagel,  B and Newman,  S and Newsom,  C and Norton,  E and Osmundson,  S and Ou,  X and Pekar,  J and Peralta-Carcelen,  M and Perez-Edgar,  K and Poehlmann-Tynan,  J and Potter,  A and Riggins,  T and Rogers,  C and Satin,  A and Scott,  L and Shenberger,  J and Shuffrey,  L and Smith,  B and Smith,  L and Stamilio,  D and Sullivan,  E and Thomason,  M and Vannest,  J and Volk,  H and Wakschlag,  L and Wilson,  S and Wisnowski,  J and Yerby,  L and Zgierska,  A and Zilverstand,  A},
  title = {HBCD Study Data Release 1.0},
  publisher = {Lasso Informatics US Inc},
  year = {2025}
}

Structure:

HBCD/1.0/
|__ rawdata/ 
|   |__ phenotype/     # Tabulated Data (demographics, visit info, behavior, etc.)
|   |   |__ par_visit_data.*
|   |   |__ sed_basic_demographics.*
|   |   |__ <instrument_name>.*
|   |
|   |__ sub-<label>/   # Raw File-Based Data (MRI, EEG, etc.)
|   |   |__ sub-<label>_sessions.tsv
|   |   |__ sub-<label>_sessions.json
|   |   |__ ses-<label>/
|   |       |__ anat/
|   |       |__ dwi/
|   |       |__ eeg/
|   |       |__ fmap/
|   |       |__ func/
|   |       |__ motion/
|   |       |__ mrs/
|   |       |__ sub-<label>_ses-<label>_scans.tsv
|   |       |__ sub-<label>_ses-<label>_scans.json
|   |
|   |__ dataset_description.json
|   |__ participants.tsv
|   |__ participants.json 
|
|__ derivatives/        # Processed File-Based Data (MRI, EEG, etc.)
    |__ bibsnet/
    |__ hbcd_motion/
    |__ made/
    |__ mriqc/
    |__ nibabies/
    |__ osprey/
    |__ qmri_postproc/
    |__ qsiprep/
    |__ qsirecon/
    |__ symri/
    |__ xcp_d/

IMAGEN

IMAGEN/
├── 2.7
    ├── BL
    │   ├── cantab
    │   ├── dawba
    │   ├── genomics
    │   ├── geolocation
    │   ├── imaging
    │   ├── meta_data
    │   └── psytools
    ├── FU1
    │   ├── dawba
    │   ├── geolocation
    │   ├── imaging
    │   └── psytools
    ├── FU2
    │   ├── cantab
    │   ├── dawba
    │   ├── genomics
    │   ├── geolocation
    │   ├── imaging
    │   ├── meta_data
    │   └── psytools
    └── FU3
        ├── cantab
        ├── dawba
        ├── genomics
        ├── geolocation
        ├── imaging
        ├── meta_data
        ├── participants
        └── psytools

Additionally, this structure has been converted to BIDS format. Note: NIFTI files are renamed and symlinked to original data.

├── bids
│   ├── dataset_description.json
│   ├── participants.json
│   ├── participants.tsv
│   ├── README
│   ├── sub-{...}
|   |  ...
Number of Subjects: 2152
| session   |   anat |   dwi |   fmap |   func |
|:----------|-------:|------:|-------:|-------:|
| ses-BL    |   2112 |  1861 |   1955 |   2117 |
| ses-FU2   |   1422 |  1411 |   1394 |   1422 |
| ses-FU3   |   1181 |  1162 |   1040 |   1181 |