2017F1000Res
A very simple, re-executable neuroimaging publication
Ghosh SS, Poline JB, Keator DB, Halchenko YO, Thomas AG, Kessler DA, Kennedy DN
ReproNim — Center for Reproducible Neuroimaging Computation
NIBIB P41 EB019936 (Site PI; PI Kennedy, UMass Med; Director TR&D Project 2)
A Center dedicated to improving reproducibility in neuroimaging via best practices, tools, and training. Current efforts include Simple 2 (re-executable neuroimaging publications with NIDM provenance), ReproSchema (standardized questionnaires / assessments for ABCD, HBCD, Bridge2AI), ReproBRAISE / ABCD-ReproNim (Reproducible BRAIn State Extraction), containerized BIDS apps (FreeSurfer / FSL / ANTs / MRIQC), and BABS (BIDS App Bootstrap).
- reproducibility-tooling
- neuroimaging-methods
- open-data-standards
Resources
Links
People
Contributors
Publications
7 papers associated with this project
- 2019Front Neuroinform
Everything Matters: The ReproNim Perspective on Reproducible Neuroimaging
Kennedy DN, Abraham SA, Bates JF, Crowley A, Ghosh S, Gillespie T, Goncalves M, Grethe JS, Halchenko YO, Hanke M, Haselgrove C, Hodge SM, Jarecka D, Kaczmarzyk J, Keator DB, Meyer K, Martone ME, Padhy S, Poline JB, Preuss N, Sincomb T, Travers M
- 2023Front Neuroinform
NIDM-Terms: community-based terminology management for improved neuroimaging dataset descriptions and query
Queder N, Tien VB, Abraham SA, Urchs SGW, Helmer KG, Chaplin D, van Erp TGM, Kennedy DN, Poline JB, Grethe JS, Ghosh SS, Keator DB
- 2024Imaging Neurosci (Camb)
A reproducible and generalizable software workflow for analysis of large-scale neuroimaging data collections using BIDS Apps
Zhao C, Jarecka D, Covitz S, Chen Y, Eickhoff SB, Fair DA, Franco AR, Halchenko YO, Hendrickson TJ, Hoffstaedter F, Houghton A, Kiar G, Macdonald A, Mehta K, Milham MP, Salo T, Hanke M, Ghosh SS, Cieslak M, Satterthwaite TD
- 2025J Med Internet Res
Standardizing Survey Data Collection to Enhance Reproducibility: Development and Comparative Evaluation of the ReproSchema Ecosystem
Chen Y, Jarecka D, Abraham SA, Gau R, Ng E, Low DM, Bevers I, Johnson A, Keshavan A, Klein A, Clucas J, Rosli Z, Hodge SM, Linkersdörfer J, Bartsch H, Das S, Fair D, Kennedy D, Ghosh SS
- 2024J Open Source Softw
HeuDiConv - flexible DICOM conversion into structured directory layouts
Halchenko YO, Goncalves M, Ghosh S, Velasco P, Visconti di Oleggio Castello M, Salo T, Wodder JT 2nd, Hanke M, Sadil P, Gorgolewski KJ, Ioanas HI, Rorden C, Hendrickson TJ, Dayan M, Houlihan SD, Kent J, Strauss T, Lee J, To I, Markiewicz CJ, Lukas D, Butler ER, Thompson T, Termenon M, Smith DV, Macdonald A, Kennedy DN
- 2026PreprintOSF Preprints
Neurobagel: building an international network for distributed data discovery
Sebastian G. W. Urchs, Alan Dai, Arman Jahanpour, Michelle Wang, Mathieu Dugré, Nikhil Bhagwat, Brent McPherson, Julia Pfarr, Emma van Heese, Marina A. Laansma, Emile d'Angremont, Bianca Strasser-Kirchweger, Camille Maumet, Jeffrey S. Grethe, Vincent Taschereau-Dumouchel, Lyuba Zehl, Gabriel A. Devenyi, Florian Hutzler, Sean N. Hatton, Michael Hanke, Erin W. Dickie, Francois Jeanson, Yaroslav O. Halchenko, Christopher J Markiewicz, Katie M. Lavigne, Neda Jahanshad, Paul Thompson, David Keator, Satrajit S Ghosh, Russell A. Poldrack, Stéphane Lehéricy, Jan G. Bjaalie, Franco Pestilli, Dan N. Kennedy, Ysbrand van der Werf, Tristan Glatard, M. Mallar Chakravarty, Jean-Baptiste Poline
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