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organize and describe neuroimaging and behavioral data. Governed by a community-elected steering group.\nPart of # Center for Open Neuroscience People #Currently associated # Yaroslav Halchenko (Contributor) ","date":null,"permalink":"/projects/bids/","section":"Projects","summary":"","title":"Brain Imaging Data Structure"},{"content":"","date":null,"permalink":"/publications/doi-10-1162-neco-2007-09-06-340/","section":"Publications","summary":"","title":"Brain reading using full brain support vector machines for object recognition: there is no “face” identification area"},{"content":"","date":null,"permalink":"/publications/doi-10-1016-j-neuron-2021-04-001/","section":"Publications","summary":"","title":"Brainhack: Developing a culture of open, inclusive, community-driven neuroscience"},{"content":"","date":null,"permalink":"/publications/doi-10-1145-3701716-3715483/","section":"Publications","summary":"","title":"Bridging the Scientific Knowledge Gap and Reproducibility: A Survey of Provenance, Assertion and Evidence Ontologies"},{"content":"","date":null,"permalink":"/persons/brock-wester/","section":"People","summary":"","title":"Brock-Wester"},{"content":"The Center for Open Neuroscience brings open practices into the everyday work of neuroscience. We build, connect, test, document, and share the tools and infrastructure that help researchers work transparently and reproducibly.\nOur principles #Open source #Open source supports collaboration at scale and makes scientific work easier to inspect, verify, and reproduce. CON also helps scientific developers make informed choices about licensing and sustainable development practices.\nRe-use and integration #Research communities already produce powerful software and valuable data. Before inventing another solution, we look for ways to improve, connect, and reuse what exists.\nDissemination #Scientific projects rarely have dedicated resources for promotion or reliable distribution. We help share software, data, and documentation while paying attention to intellectual property and due acknowledgment.\nQuality assurance #Research software deserves the same care as other scientific instruments. We work on unit, regression, integration, and validity testing so that reproducible workflows also produce trustworthy results.\nConvenience #Open resources can have broad impact only when people can obtain and use them. We work to make software and data accessible without hiding their provenance or the complexity needed to manage them responsibly.\nCommunity #Neuroscience spans many disciplines, yet projects can still develop in isolation. CON participates in cross-community initiatives and helps build bridges among research groups.\nExplore CON projects or meet the people behind them.\nBackground reading # Open and reproducible neuroimaging: from study inception to publication Four aspects to make science open “by design” and not as an after-thought Open is not enough. Let’s take the next step: an integrated, community-driven computing platform for neuroscience Engage #Contribute #CON is an open community. You are welcome to build, document, test, teach, or use any of our projects, whether or not you are looking for a formal position.\nStart with the DataLad project, browse the full catalogue, or contact the team to discuss where your experience could help.\nPromote #Scientific software projects rarely have dedicated resources for community outreach. The following CON materials are available for exhibits, bulletin boards, teaching, and conversations about open neuroscience. Follow each pamphlet image to its printable PDF where available.\nPamphlet collation # A single-page collection of QR codes for the pamphlets below.\nPython in electrophysiology # A double-sided introduction to Python-based projects for electrophysiology. The artwork sources are public.\nPython in neuroimaging # A double-sided introduction to Python-based projects for neuroimaging. The artwork sources are public.\nDebian and NeuroDebian # This pamphlet introduces Debian and the NeuroDebian project. Its artwork sources are public.\ngit-annex and DataLad # A double-sided introduction to DataLad and git-annex. The artwork sources are public.\nBIDS # This pamphlet introduces the Brain Imaging Data Structure, a standardized layout that helps researchers reuse methods and share neuroimaging data.\nSupport #CON has received institutional and grant support from the organizations below. These acknowledgments describe past support, not current award periods.\nCenter for Cognitive Neuroscience # National Science Foundation # National Institutes of Health # Support helps CON maintain open software, data services, documentation, and community infrastructure. Contact the team to discuss sponsorship or other forms of support.\n","date":null,"permalink":"/","section":"Center for Open Neuroscience","summary":"","title":"Center for Open Neuroscience"},{"content":"","date":null,"permalink":"/persons/chris-cheng/","section":"People","summary":"","title":"Chris Cheng"},{"content":"","date":null,"permalink":"/persons/chris-markiewicz/","section":"People","summary":"","title":"Chris Markiewicz"},{"content":"","date":null,"permalink":"/publications/zotero-abze6dsn/","section":"Publications","summary":"","title":"Clustering cortical searchlights based on shared representational geometry"},{"content":"","date":null,"permalink":"/persons/cody-baker/","section":"People","summary":"","title":"Cody Baker"},{"content":"Lightweight wrapper that collects execution data for an arbitrary command including execution time, system information, and resource usage statistics. Particularly suited for HPC environments.\nPart of # Center for Open Neuroscience ","date":null,"permalink":"/projects/con-duct/","section":"Projects","summary":"","title":"con/duct"},{"content":"Command for downloading build logs, artifacts, and release assets for a GitHub repository. Supports GitHub Actions, Travis-CI.com, and Appveyor with optional DataLad control for backup and distribution.\nPart of # Center for Open Neuroscience ","date":null,"permalink":"/projects/con-tinuous/","section":"Projects","summary":"","title":"con/tinuous"},{"content":"The Center for Open Neuroscience is based in Psychological and Brain Sciences at 3 Maynard Street, Hanover, New Hampshire 03755, USA.\nEmail # Write to team@centerforopenneuroscience.org about collaboration, contribution, or support.\nSource and community work # CON\u0026rsquo;s public software and issue trackers are at github.com/con.\nOrganization identifier # CON\u0026rsquo;s stable Research Organization Registry identifier is ROR 04tfhh831.\n","date":null,"permalink":"/contact/","section":"Center for Open Neuroscience","summary":"","title":"Contact"},{"content":"","date":null,"permalink":"/publications/zotero-qltpv7jm/","section":"Publications","summary":"","title":"Converging catalogues, warehouses, and deployment logistics into a federated 'data distribution'"},{"content":"","date":null,"permalink":"/publications/doi-10-1109-prni-2016-7552355/","section":"Publications","summary":"","title":"Cross-modal searchlight classification: Methodological challenges and recommended solutions"},{"content":"","date":null,"permalink":"/publications/doi-10-5281-zenodo-8253053/","section":"Publications","summary":"","title":"Dartmouth Brain Imaging Center (DBIC) QA data (weekly QA scans etc.)"},{"content":"","date":null,"permalink":"/publications/doi-10-3389-fninf-2012-00009/","section":"Publications","summary":"","title":"Data sharing in neuroimaging research"},{"content":"","date":null,"permalink":"/instruments/datalad/","section":"Instruments","summary":"","title":"DataLad"},{"content":"A data management platform that adapts open-source software distribution models to address data-sharing limitations. Provides a versatile data management platform using git-annex for large data tracking built on Git.\nPart of # Center for Open Neuroscience People #Currently associated # Michael Hanke (Lead) Matteo Visconti di Oleggio Castello (Contributor) Kyle Meyer (Contributor) Benjamin Poldrack (Contributor) Yaroslav Halchenko (Lead) Outputs # DataLad software DataLad: distributed system for joint management of code, data, and their relationship ","date":null,"permalink":"/projects/datalad/","section":"Projects","summary":"","title":"DataLad"},{"content":"","date":null,"permalink":"/publications/zotero-7ahrxd2x/","section":"Publications","summary":"","title":"DataLad – decentralized data distribution for consumption and sharing of scientific datasets"},{"content":"Service maintaining up-to-date information on an expanding collection of datasets, currently numbering over ten thousand. Provides automatic dataset registration, metadata extraction, and search functionality via web interface and RESTful API.\nPart of # Center for Open Neuroscience People #Currently associated # Isaac To (Lead) ","date":null,"permalink":"/projects/datalad-registry/","section":"Projects","summary":"","title":"DataLad Registry"},{"content":"","date":null,"permalink":"/publications/datalad-joss-2021/","section":"Publications","summary":"","title":"DataLad: distributed system for joint management of code, data, and their relationship"},{"content":"","date":null,"permalink":"/datasets/","section":"Datasets","summary":"","title":"Datasets"},{"content":"","date":null,"permalink":"/persons/david-kennedy/","section":"People","summary":"","title":"David Kennedy"},{"content":"","date":null,"permalink":"/publications/zotero-3zvyrxu7/","section":"Publications","summary":"","title":"Debian Med: Integrated software environment for all medical purposes based on Debian GNU/Linux"},{"content":"","date":null,"permalink":"/publications/doi-10-1111-j-1467-9280-2009-02460-x/","section":"Publications","summary":"","title":"Decoding the Large-Scale Structure of Brain Function by Classifying Mental States Across Individuals"},{"content":"","date":null,"permalink":"/publications/zotero-msjlptey/","section":"Publications","summary":"","title":"Decoding the neural representation of observed social and nonsocial human actions"},{"content":"","date":null,"permalink":"/publications/doi-10-1016-j-mri-2007-03-013/","section":"Publications","summary":"","title":"Dense mode clustering in brain maps"},{"content":"","date":null,"permalink":"/publications/doi-10-1038-s41597-025-05503-w/","section":"Publications","summary":"","title":"DICOM datasets for reproducible neuroimaging research across manufacturers and software versions"},{"content":"Community for enthusiasts of tools and workflows in the domain of distributed data.\nPart of # Center for Open Neuroscience ","date":null,"permalink":"/projects/distribits/","section":"Projects","summary":"","title":"distribits"},{"content":"Platform for publishing, sharing, and processing neurophysiology data supported by the BRAIN Initiative. Provides data upload and distribution with supplementary client tools for data introspection and organization. Compliant with NWB standards.\nPart of # Center for Open Neuroscience People #Currently associated # Satrajit Ghosh (Principal investigator (PI)) Yaroslav Halchenko (Principal investigator (PI)) ","date":null,"permalink":"/projects/dandi/","section":"Projects","summary":"","title":"Distributed Archives for Neurophysiology Data Integration"},{"content":"Provides a solution for the problem of inadequate citation and referencing of scientific software and methods. A Python-focused framework embedding publication references in code with automatic citation collection and reporting.\nPart of # Center for Open Neuroscience People #Currently associated # Yaroslav Halchenko (Creator) Matteo Visconti di Oleggio Castello (Creator) ","date":null,"permalink":"/projects/duecredit/","section":"Projects","summary":"","title":"DueCredit"},{"content":"","date":null,"permalink":"/publications/zotero-qhqktyyq/","section":"Publications","summary":"","title":"DueCredit - automagically collect citations for software, methods, and data you use"},{"content":"BRAIN Initiative archive for multi-modal neurophysiological and behavioral data, supporting the Brain Behavior Quantification and Synchronization Program. Being developed based on DANDI.\nPart of # Center for Open Neuroscience People #Currently associated # Yaroslav Halchenko (Research team member) Brock Wester (Principal investigator (PI)) ","date":null,"permalink":"/projects/ember/","section":"Projects","summary":"","title":"Ecosystem for Multi-modal Brain-behavior Experimentation and Research"},{"content":"","date":null,"permalink":"/publications/zotero-kp46b5su/","section":"Publications","summary":"","title":"Everything Matters: The ReproNim Perspective on Reproducible Neuroimaging"},{"content":"Explore the connections between people, projects and research outputs.\n","date":null,"permalink":"/explore/","section":"Center for Open Neuroscience","summary":"","title":"Explore"},{"content":"","date":null,"permalink":"/publications/zotero-yzynt7j3/","section":"Publications","summary":"","title":"Fantastic containers and how to tame them"},{"content":"","date":null,"permalink":"/publications/zotero-iw32d26f/","section":"Publications","summary":"","title":"Finding cortical patches of shared representations: a comparison of clustering algorithms on representational geometries, and the effect of cross-validation to reduce physiological noise"},{"content":"","date":null,"permalink":"/publications/doi-10-1186-s13742-015-0072-7/","section":"Publications","summary":"","title":"Four aspects to make science open \"by design\" and not as an after-thought"},{"content":"","date":null,"permalink":"/publications/doi-10-12688-f1000research-7628-1/","section":"Publications","summary":"","title":"Four aspects to make science open by design and not as an after-thought"},{"content":"","date":null,"permalink":"/persons/franco-pestilli/","section":"People","summary":"","title":"Franco Pestilli"},{"content":"","date":null,"permalink":"/publications/zotero-pj5u5btz/","section":"Publications","summary":"","title":"Fusion of Functional Brain Imaging Modalities using L-Norms Signal Reconstruction"},{"content":"","date":null,"permalink":"/publications/zotero-q6fwwrde/","section":"Publications","summary":"","title":"Fusion of functional brain imaging modalities via linear programming"},{"content":"","date":null,"permalink":"/persons/gergana-alteva/","section":"People","summary":"","title":"Gergana Alteva"},{"content":"","date":null,"permalink":"/publications/doi-10-48550-arxiv-2504-07824/","section":"Publications","summary":"","title":"Go Figure: Transparency in neuroscience images preserves context and clarifies interpretation"},{"content":"Flexible DICOM converter for organizing brain imaging data into structured directory layouts. Includes the ReproIn component for turnkey automatic conversion of MR data to BIDS DataLad datasets.\nPart of # Center for Open Neuroscience People #Currently associated # Matteo Visconti di Oleggio Castello (Contributor) James Haxby (Contributor) Yaroslav Halchenko (Lead) ","date":null,"permalink":"/projects/heudiconv/","section":"Projects","summary":"","title":"HeuDiConv"},{"content":"","date":null,"permalink":"/publications/doi-10-21105-joss-05839/","section":"Publications","summary":"","title":"HeuDiConv — flexible DICOM conversion into structureddirectory layouts"},{"content":"","date":null,"permalink":"/persons/horea-ioanas/","section":"People","summary":"","title":"Horea-Ioan Ioanas"},{"content":"","date":null,"permalink":"/publications/doi-10-1523-jneurosci-3395-15-2016/","section":"Publications","summary":"","title":"How the human brain represents perceived dangerousness or \"predacity\" of animals"},{"content":"","date":null,"permalink":"/publications/zotero-sarh7hnt/","section":"Publications","summary":"","title":"How to make brain imaging research efficient and reproducible: building software and standards"},{"content":"Python toolbox for gaining geometric insights into high dimensional data. Supports 2D/3D static and animated visualizations, data manipulation including hyperalignment and k-means clustering.\nPart of # Center for Open Neuroscience People #Currently associated # Jeremy Manning (Lead) ","date":null,"permalink":"/projects/hypertools/","section":"Projects","summary":"","title":"HyperTools"},{"content":"","date":null,"permalink":"/publications/http-jmlr-org-papers-v18-17-434-html/","section":"Publications","summary":"","title":"HyperTools: a Python Toolbox for Gaining Geometric Insights into High-Dimensional Data"},{"content":"","date":null,"permalink":"/publications/zotero-99yqf7jr/","section":"Publications","summary":"","title":"Image Segmentation on the basis of spatial connected features"},{"content":"","date":null,"permalink":"/publications/zotero-hywv9d2a/","section":"Publications","summary":"","title":"Improving efficiency in cognitive neuroscience research with NeuroDebian"},{"content":"","date":null,"permalink":"/publications/doi-10-1515-nf-2020-0037/","section":"Publications","summary":"","title":"In defense of decentralized research data management"},{"content":"","date":null,"permalink":"/publications/zotero-5t9a4qcy/","section":"Publications","summary":"","title":"Incorrect probabilities in Harvard-Oxford-sub Left hemisphere"},{"content":"","date":null,"permalink":"/instruments/","section":"Instruments","summary":"","title":"Instruments"},{"content":"","date":null,"permalink":"/publications/zotero-yq6vtmde/","section":"Publications","summary":"","title":"Investigation of the familiar face recognition model"},{"content":"","date":null,"permalink":"/publications/doi-10-1016-j-biopsych-2021-02-385/","section":"Publications","summary":"","title":"IQ in Typical Development: A Mega-Analysis of the Historical Literature"},{"content":"","date":null,"permalink":"/persons/isaac-to/","section":"People","summary":"","title":"Isaac To"},{"content":"","date":null,"permalink":"/persons/james-haxby/","section":"People","summary":"","title":"James Haxby"},{"content":"","date":null,"permalink":"/persons/jason-gors/","section":"People","summary":"","title":"Jason Gors"},{"content":"","date":null,"permalink":"/persons/jean-baptiste-poline/","section":"People","summary":"","title":"Jean-Baptiste Poline"},{"content":"","date":null,"permalink":"/persons/jeremy-manning/","section":"People","summary":"","title":"Jeremy Manning"},{"content":"","date":null,"permalink":"/persons/joey-hess/","section":"People","summary":"","title":"Joey Hess"},{"content":"","date":null,"permalink":"/persons/john-lee/","section":"People","summary":"","title":"John Lee"},{"content":"","date":null,"permalink":"/persons/john-wodder/","section":"People","summary":"","title":"John Wodder"},{"content":"","date":null,"permalink":"/persons/kyle-meyer/","section":"People","summary":"","title":"Kyle Meyer"},{"content":"","date":null,"permalink":"/publications/zotero-ppl6eufk/","section":"Publications","summary":"","title":"Localizing functional regions of interest based on responses to dynamic naturalistic stimuli"},{"content":"","date":null,"permalink":"/persons/luke-chang/","section":"People","summary":"","title":"Luke Chang"},{"content":"","date":null,"permalink":"/persons/matteo-visconti-di-oleggio-castello/","section":"People","summary":"","title":"Matteo Visconti di Oleggio Castello"},{"content":"","date":null,"permalink":"/persons/matthew-brett/","section":"People","summary":"","title":"Matthew Brett"},{"content":"","date":null,"permalink":"/persons/matthijs-van-der-meer/","section":"People","summary":"","title":"Matthijs van der Meer"},{"content":"","date":null,"permalink":"/publications/doi-10-1117-12-388446/","section":"Publications","summary":"","title":"Method for image coordinate definition on extended laser paths"},{"content":"","date":null,"permalink":"/persons/michael-hanke/","section":"People","summary":"","title":"Michael Hanke"},{"content":"","date":null,"permalink":"/publications/doi-10-3389-fnins-2022-871228/","section":"Publications","summary":"","title":"Microscopy-BIDS: An Extension to the Brain Imaging Data Structure for Microscopy Data"},{"content":"","date":null,"permalink":"/publications/doi-10-1038-s41597-025-05543-2/","section":"Publications","summary":"","title":"MRS-BIDS, an extension to the Brain Imaging Data Structure for magnetic resonance spectroscopy"},{"content":"","date":null,"permalink":"/publications/doi-10-21105-joss-01525/","section":"Publications","summary":"","title":"multimatch-gaze: The MultiMatch algorithm for gaze path comparison in Python"},{"content":"","date":null,"permalink":"/publications/doi-10-1101-2020-12-23-424091/","section":"Publications","summary":"","title":"Narratives: fMRI data for evaluating models of naturalistic language comprehension"},{"content":"A data standard providing neuroscientists with a common standard to share, archive, use, and build analysis tools for neurophysiology data.\nPart of # 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Provides a comprehensive suite of readily usable and fully integrated software with robust testing and deployment infrastructure.\nPart of # Center for Open Neuroscience People #Currently associated # Yaroslav Halchenko (Lead) Michael Hanke (Lead) ","date":null,"permalink":"/projects/neurodebian/","section":"Projects","summary":"","title":"NeuroDebian"},{"content":"","date":null,"permalink":"/publications/zotero-sfqu8qby/","section":"Publications","summary":"","title":"NeuroDebian: from disjoint tools and data to robust turnkey platform for neuroimaging and beyond"},{"content":"","date":null,"permalink":"/publications/doi-10-1038-s41592-023-02145-x/","section":"Publications","summary":"","title":"Neurodesk: an accessible, flexible and portable data analysis environment for reproducible neuroimaging"},{"content":"","date":null,"permalink":"/topics/neuroimaging/","section":"Topics","summary":"","title":"Neuroimaging"},{"content":"","date":null,"permalink":"/publications/doi-10-3389-fninf-2024-1376022/","section":"Publications","summary":"","title":"Neuroimaging article reexecution and reproduction assessment system"},{"content":"","date":null,"permalink":"/publications/doi-10-3389-fninf-2011-00008/","section":"Publications","summary":"","title":"Neuroscience Runs on GNU/Linux"},{"content":"","date":null,"permalink":"/publications/zotero-v65l6j8x/","section":"Publications","summary":"","title":"NICEMAN: NeuroImaging Computational Environments Manager"},{"content":"","date":null,"permalink":"/publications/zotero-4f4fcvy7/","section":"Publications","summary":"","title":"NIDM-Workflow - The Evolution of Provenance in Neuroimaging"},{"content":"","date":null,"permalink":"/persons/nikolaas-oosterhof/","section":"People","summary":"","title":"Nikolaas Oosterhof"},{"content":"","date":null,"permalink":"/publications/doi-10-3389-fninf-2011-00013/","section":"Publications","summary":"","title":"Nipype: a flexible, lightweight and extensible neuroimaging data processing framework in python"},{"content":"","date":null,"permalink":"/objectives/","section":"Objectives","summary":"","title":"Objectives"},{"content":"","date":null,"permalink":"/persons/oliver-contier/","section":"People","summary":"","title":"Oliver Contier"},{"content":"","date":null,"permalink":"/publications/doi-10-1007-s00418-023-02209-1/","section":"Publications","summary":"","title":"OME-Zarr: a cloud-optimized bioimaging file format with international community support"},{"content":"","date":null,"permalink":"/publications/doi-10-1101-2023-02-17-528834/","section":"Publications","summary":"","title":"OME-Zarr: a cloud-optimized bioimaging file format with international community support"},{"content":"","date":null,"permalink":"/publications/doi-10-31219-osf-io-pu5vb/","section":"Publications","summary":"","title":"Open and reproducible neuroimaging: from study inception to publication"},{"content":"","date":null,"permalink":"/publications/doi-10-1016-j-neuroimage-2022-119623/","section":"Publications","summary":"","title":"Open and reproducible neuroimaging: From study inception to publication"},{"content":"Aims to facilitate neuroimaging data sharing by providing an out-of-the-box solution including consent forms enabling anonymized data deposition and anonymization tools/pipelines. 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