scitex-dataset 0.1.3

Dataset fetcher for neuroscience research (OpenNeuro, BIDS, etc.)

SciTeX Dataset

Unified access to neuroscience datasets for AI-powered research

SciTeX Dataset provides a unified interface to discover and fetch metadata from major neuroscience data repositories.

Part of SciTeX.

Data Sources

Repository	Description	Data Types
OpenNeuro	Open platform for sharing neuroimaging data	MRI, EEG, MEG, iEEG, PET
DANDI	BRAIN Initiative data archive	Electrophysiology, Ophys
PhysioNet	Physiological signal databases	ECG, EEG, clinical data

Quick Start

pip install scitex-dataset

Python API

from scitex_dataset import fetch_all_datasets, format_dataset

# Fetch datasets from OpenNeuro
datasets = fetch_all_datasets(max_datasets=10)

# Format for analysis
for ds in datasets:
    formatted = format_dataset(ds)
    print(f"{formatted['id']}: {formatted['name']} ({formatted['n_subjects']} subjects)")

CLI

# Fetch OpenNeuro datasets
scitex-dataset openneuro -n 100 -o datasets.json -v

# Search across repositories
scitex-dataset search "epilepsy EEG" --source openneuro

# Database operations
scitex-dataset db init
scitex-dataset db sync openneuro
scitex-dataset db query "modality:eeg"

MCP Server

SciTeX Dataset includes an MCP (Model Context Protocol) server, enabling AI agents like Claude to discover and query neuroscience datasets.

# Add to Claude Code MCP config
scitex-dataset mcp install

# Or run directly
scitex-dataset mcp start

Available MCP Tools:

Tool	Description
dataset_openneuro_fetch	Fetch datasets from OpenNeuro
dataset_openneuro_search	Search OpenNeuro by query
dataset_dandi_fetch	Fetch datasets from DANDI Archive
dataset_dandi_search	Search DANDI by query
dataset_physionet_fetch	Fetch datasets from PhysioNet
dataset_physionet_search	Search PhysioNet by query
dataset_search	Unified search across all repositories
dataset_stats	Get repository statistics

With SciTeX Session

import scitex as stx
from scitex_dataset import fetch_all_datasets, format_dataset

@stx.session
def main(logger=stx.INJECTED):
    datasets = fetch_all_datasets(max_datasets=100, logger=logger)
    formatted = [format_dataset(ds) for ds in datasets]
    stx.io.save(formatted, "openneuro_datasets.json")
    return 0

if __name__ == "__main__":
    main()

Why SciTeX Dataset?

• Unified Interface: One API for OpenNeuro, DANDI, PhysioNet, and more
• AI-Ready: MCP server enables LLMs to discover relevant datasets
• Metadata Focus: Fast metadata queries without downloading full datasets
• SciTeX Integration: Works seamlessly with @stx.session for reproducible research

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AGPL-3.0