Coord2Region: A Python Package for Mapping 3D Brain Coordinates to Atlas Labels, Literature, and AI Summaries
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| Main Authors: | , , , , , |
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| Format: | Preprint |
| Published: |
2025
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| _version_ | 1866911329019756544 |
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| author | Abdelhedi, Hamza Mantilla-Ramos, Yorguin-Jose Esmaeili, Sina Pascarella, Annalisa Hadid, Vanessa Jerbi, Karim |
| author_facet | Abdelhedi, Hamza Mantilla-Ramos, Yorguin-Jose Esmaeili, Sina Pascarella, Annalisa Hadid, Vanessa Jerbi, Karim |
| contents | We present Coord2Region, an open-source Python package that streamlines coordinate-based neuroimaging workflows by automatically mapping 3D brain coordinates (e.g., MNI or Talairach) to anatomical regions across multiple atlases. The package links mapped coordinates to meta-analytic resources via the Neuroimaging Meta-Analysis Research Environment (NiMARE) , providing direct integration with Neurosynth and NeuroQuery. This directly connects coordinates and regions to the broader neuroimaging literature. In addition to atlas-based labeling and literature retrieval, Coord2Region offers an optional large language model (LLM) functionality that generates text summaries of linked studies and illustrative images of queried regions. These AI-assisted features are intended to support interpretation and exploration, while remaining clearly complementary to peer-reviewed literature and established neuroimaging tools. Coord2Region provides a unified pipeline with a robust command-line interface, flexible dataset management, and provider-agnostic LLM utilities, and it supports both single-coordinate and high-throughput batch queries with nearest-region fallback for volume and surface atlases. Furthermore, Coord2Region includes a web interface for interactive configuration (via JSON Schema forms) and cloud execution (via Hugging Face), enabling users to build YAML configurations and run analyses in-browser without local installation. Together, these capabilities lower friction, reduce manual errors, and improve reproducibility in coordinate-centric neuroimaging workflows, promoting more robust and transparent research practices. |
| format | Preprint |
| id |
arxiv_https___arxiv_org_abs_2512_18165 |
| institution | arXiv |
| publishDate | 2025 |
| record_format | arxiv |
| spellingShingle | Coord2Region: A Python Package for Mapping 3D Brain Coordinates to Atlas Labels, Literature, and AI Summaries Abdelhedi, Hamza Mantilla-Ramos, Yorguin-Jose Esmaeili, Sina Pascarella, Annalisa Hadid, Vanessa Jerbi, Karim Neurons and Cognition We present Coord2Region, an open-source Python package that streamlines coordinate-based neuroimaging workflows by automatically mapping 3D brain coordinates (e.g., MNI or Talairach) to anatomical regions across multiple atlases. The package links mapped coordinates to meta-analytic resources via the Neuroimaging Meta-Analysis Research Environment (NiMARE) , providing direct integration with Neurosynth and NeuroQuery. This directly connects coordinates and regions to the broader neuroimaging literature. In addition to atlas-based labeling and literature retrieval, Coord2Region offers an optional large language model (LLM) functionality that generates text summaries of linked studies and illustrative images of queried regions. These AI-assisted features are intended to support interpretation and exploration, while remaining clearly complementary to peer-reviewed literature and established neuroimaging tools. Coord2Region provides a unified pipeline with a robust command-line interface, flexible dataset management, and provider-agnostic LLM utilities, and it supports both single-coordinate and high-throughput batch queries with nearest-region fallback for volume and surface atlases. Furthermore, Coord2Region includes a web interface for interactive configuration (via JSON Schema forms) and cloud execution (via Hugging Face), enabling users to build YAML configurations and run analyses in-browser without local installation. Together, these capabilities lower friction, reduce manual errors, and improve reproducibility in coordinate-centric neuroimaging workflows, promoting more robust and transparent research practices. |
| title | Coord2Region: A Python Package for Mapping 3D Brain Coordinates to Atlas Labels, Literature, and AI Summaries |
| topic | Neurons and Cognition |
| url | https://arxiv.org/abs/2512.18165 |