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People contributing to Mindboggle

Mindboggle is an open source community project with a growing list of software contributors (ordered chronologically):
Contributors Contact Primary contributions
Arno Klein Main developer
Satrajit Ghosh satra [at] Nipype and informatics guidance
Forrest Bao forrest.bao [at] VTK i/o, spectra port [1], MST fundi
Joachim Giard joachimgiard [at] C++ surface shapes (depth, curvature)
Yrjö Häme yrjo.hame [at] HMMF feature tests
Eliezer Stavsky eli.stavsky [at] Label propagation tests
Noah Lee nl2168 [at] Deep learning and graph-based database tests
Brian Rossa br [at] Zernike moments port [2]
Oliver Hinds ohinds [at] Label propagation tests
Nolan Nichols nolan.nichols [at] Linked data i/o tests
Daniel Clark daniel.clark [at] Install script (bash)
Elias Chaibub Neto neto [at] Statistical analysis (R code)
Anisha Keshavan anisha.keshavan [at] ROYGBIV brain image viewer (JavaScript)
Third party    
Martin Reuter mreuter [at] [1] Laplace-Beltrami spectra (Matlab)
Arthur Mikhno arthur.mikhno [at] [2] Zernike moments (Matlab)
Hal Canary hal [at] vtkviewer (Python VTK viewer)
people/ArnoKlein.jpg Arno Klein (, CV) is the lead developer of the Mindboggle package. As Director of Innovative Technologies at the Child Mind Institute in Manhattan, he is building a sensors and wearables program to study mental illness and offer potential interventions. Previous positions include Director of Neuroimaging at Sage Bionetworks, Assistant Professor of Clinical Neuroimaging at Columbia University, and Information Synthesis Theorist at the Parsons Institute for Information Mapping.
people/SatrajitGhosh.jpg Satrajit Ghosh, a Research Scientist in the Research Lab of Electronics at MIT, is developing the software pipeline framework, NiPype, that we have built Mindboggle in. Satra’s research areas include brain imaging, neuroanatomy, software engineering and speech communication.
people/AnishaKeshavan.jpg Anisha Keshavan, a graduate student in the UC Berkeley - UCSF graduate program in Bioengineering, helped to write ROYGBIV, an interactive online brain image viewer that will be used to visualize Mindboggle output.

Past contributors

people/ForrestBao.jpg Forrest Bao made early contributions to Mindboggle as a postdoctoral associate working from Texas Tech University. He built some of the original VTK file i/o functions, developed algorithms to extract sulcus features, and an open source Python version of Martin Reuter’s Laplace-Beltrami code.
people/JoachimGiard.jpg Joachim Giard worked on the Mindboggle project as a postdoctoral researcher of electrical engineering at UCL, Belgium. He developed algorithms for computing shape measures on surface meshes for Mindboggle, including travel depth, the topic of his PhD research.
people/YrjoHame.jpg As a graduate student in the Biomedical Engineering Department of Columbia University, Yrjö Häme wrote the Hidden Markov Measure Field algorithm for extracting sulcus features from brain images for Mindboggle.
people/EliezerStavsky.jpg As a graduate student in Neurobiology and Behavior at Columbia University. Eliezer Stavsky worked on spectral shape analysis and semi-supervised learning approaches to propagate labels across a brain surface.
people/NoahLee.jpg Noah Lee contributed to the original NIMH R01 proposal (MH084029) that supported MindBoggle's research efforts; as a postdoc, he created an early graph-based database with interactive visualization and implemented a deep learning approach to automate anatomical labeling.
people/MartinReuter.jpg Martin Reuter is Instructor in Neurology at Harvard Medical School (Massachusetts General Hospital) and works on computational methods for spectral shape analysis, image registration and processing of longitudinal brain MRI data implemented in FreeSurfer. His research interests include computational neuroimaging, computational geometry and topology. Mindboggle’s Laplace-Beltrami spectra code is a Python port of Martin’s Matlab version. Martin has helped the team to develop and evaluate this spectral shape measure.
people/NolanNichols.jpg Nolan Nichols included Mindboggle as part of the NCANDA BD2K supplement grant, and finds this effort to be a nice complement to his earlier PhD work in the areas of semantic data integration and sharing of human neuroimaging data.
people/EliasChaibubNeto.jpg Elias Chaibub Neto, as a Senior Scientist at Sage Bionetworks, collaborated with Arno to perform a statistical analysis of shape measures for all labels and features generated by Mindboggle.