Contributors

This section acknowledges the contributions made to the project.

If you contributed to the project, please list yourself here with a description of your contribution.

Please consult this page for the contributor’s template. Simply copy the code and insert your information.

We try to update this page based on the git commit history:

Core team: Steffen, Aswin, Ashley, Josh, Xincheng, Thuy, Moni, Michèle, Marshall

Steffen Bollmann - stebo85

University of Queensland, Australia

Funding: Oracle Cloud (114k AUD), ECR Knowledge Exchange & Translation Fund (42k AUD), ARDC (CI for $566k AUD)
system architecture
CVMFS container deployment
initial desktop container prototype
container build scripts
application containers (afni, aslprep, code, convert3D, freesurfer, hdbet, minc mriqc, romeo, spm12, tgvqsm, bart, fatsegnet, fsl, itksnap, lcmodel, mritools, niistat, qsmxt, root, slicer, trackvis, ants, cat12, conn, diffusiontoolkit, gimp, mricrogl, mrtrix3, rstudio, slicersalt, surfice, vesselapp, bidstools, clearswi, connectomeworkbench, dsistudio, fmriprep, julia, mrtrix3tissue, palm rabies, spinalcordtoolbox)
migrating container recipes and bugfixes to neurodocker upstream (fsl, ants)
documentation
tutorials (QSM, SWI, Unwrapping, lcmodel, freesurfer)
google colab support
outreach (e.g. Mastodon, talks at conferences, youtube videos)

Aswin Narayanan - aswinnarayanan

National Imaging Facility, Australia

Funding: ARDC (CI for $566k AUD)
Neurocontainer devops
Neurodesktop development
Neurocommand installer rewrite
Neurodesk Play & Kubernetes implementation
Jupyter notebook support
Hugo website build and documentation

Thuy Dao - iishiishii

University of Queensland, Australia

Application search tool with lunr
platform independent GUI application (Neurodeskapp)
application container development (civet)
documentation (github workflow)
automated building and testing of example documentation from jupyter notebooks
development of interactive container building tool

Joshua Scarsbrook - Vbitz

University of Queensland, Australia

build.sh to build.yaml
neurocontainers

Oren Civier - civier

Swinburne University of Technology, Australia

Funding: ARDC Australian Electrophysiology Data Analytics PlaTform (AEDAPT) (CI for $566k AUD) - contributing to initial conceptualisation, EOI writeup, scope of project, proposal writeup, teaming up with the Australian Imaging Service (AIS), recruiting collaborators, assisting collaborators with case studies
Design: leading the Virtual Neuro Machine (VNM) hackathon project in the 2020 OHBM BrainHack, where the first version of Neurodesktop was developed
Development: allowing Neurodesk containers running in Neurodesktop to access sshfs mounts
Development: template for container recipe documentation
Development: software application containers - developer (bidscoin, MATLAB; in progress: MMVT)
Development: software application containers - facilitator (Fieldtrip, running arbitrary scripts using compiled MATLAB containers; in progress: SOVABIDS)
Documentation: for developers (contribution to “add tools”, configuring Github)
Documentation: for users (copy and paste troubleshooting, accessing storage, installation on different platforms, using ARDC Virtual Desktop Service, screenshots)
Documentation: Neurodesk’s original logo
User testing: HPC, NECTAR, Mac, Linux, ARDC Virtual Desktop Service
User testing: VNC and RDP interfaces, including multiple concurrent users
Outreach: providing assistance to nodes of the Australian National Imaging Facility with installing/using Neurodesk
Administration: one of Neurodesk/AEDAPT representatives in ARCOS, AIS and NECTAR Interactive Analytics committees and working groups
Papers: co-author Neurodesk manuscript (in preparation; contribution to initial outline, input on first draft), co-author proceedings of the OHBM Brainhack 2021 (to be published in Aperture)

Tom Johnstone - TomEmotion

Swinburne University of Technology, Australia

Funding: ARDC (PI for $566k AUD)
Application Container (sigviewer)

Monika Doerig - MoniDoerig

University of Queensland, Australia

Interactive notebook examples (Workflows: MRIQC, pyBIDS, Nipype on Neurodesk, RISE Slideshow of a Jupyter Notebook; Structural Imaging: Brain extraction with different software packages; Diffusion Imaging: MRtrix; Functional Imaging: AFNI, FSL, FSL’s fMRI Data Analysis via Nipype)
Co-organization of the Neurodesk Workshop in Zurich, Switzerland (2024), and presentation of “Nipype on Neurodesk”

Michèle Masson-Trottier - micmas

The University of Queensland, Australia

Redesigning the Neurodesk logo
Redesigning neurodesk.github.io
User documentation

Nikhil Kumar Jangamreddy - jnikhilreddy

The University of Queensland, Australia

Language models
Container building

Angela Renton - air2310

University of Queensland, Australia \ École Polytechnique Fédérale de Lausanne, Switzerland \ Université de Genèvre, Switzerland

Tutorials (MNE-Python, Tutorial template)
graphics for website (layer diagram)
documentation
user testing
neurodesk paper lead author

Thomas Shaw - thomshaw92

University of Queensland, Australia

Win, Mac, Linux startup scripts
initial transparent singularity prototype
application container development (LASHiS, ASHS)
user testing

Fernanda Ribeiro - felenitaribeiro

Justus-Liebig University Giessen, Germany; University of Queensland, Australia

application container development (deepretinotopy)
documentation

Ashley Stewart - astewartau

University of Queensland, Australia

application container development (qsmxt)
presentation of neurodesk at OHBM Brainhack 2022 and OHBM educational course 2022

Xincheng Ye - yexincheng

University of Queensland, Australia

application container development (delphi, slicer, deepretinotopy)

Marshall Xu - KMarshallX

University of Queensland, Australia

application container development (VesselBoost)

David White - DavidjWhite33

Swinburne University of Technology, Australia

application container development (Brainstorm, eeglab, fieldtrip)

Yaroslav Halchenko - yarikoptic

Dartmouth College, USA

datalad neurocontainers

Martin Grignard - MartinGrignard

University of Liège, Belgium

initial neurocommand prototype and menu system builder, including apps.json idea

Akshaiy Narayanan - Akshaiy91

The University of Auckland, New Zealand

bugfixes in neurodesktop, added tool for diskusage, checking of new version script

Kelly Garner - garner-code

University of New South Wales, Australia. The University of Queensland, Australia

tutorials (fmriprep, mriqc, physio batch)
user testing on MacOS

Paris Lyons -

Swinburne University of Technology, Australia

design of the first Neurodesk Logo
project management of AEDAPT project

Lars Kasper - mrikasper

University of Toronto, Canada \ University of Zurich and ETH Zurich, Zurich, Switzerland

tutorials (physio)
Application Container (physio)

Judy D Zhu - JD-Zhu

Macquarie University, Australia

application containers (fieldtrip)
tutorials (fieldtrip)

Korbinian Eckstein - korbinian90

The University of Queensland, Australia

documentation
application container development (qsmxt, mrsi)

Stefanie Evas - neuro-sevas

University of Adelaide, Australia \ CSIRO, Australia

documentation
application containers

Jeryn Chang - Cadaei-Yuvxvs

The University of Queensland, Australia

application container development (oshyx)

Sin Kim - kimsin98

Korea Advanced Institute of Science & Technology, South Korea

tutorial (datalad)

Jakub Kaczmarzyk - kaczmarj

Stony Brook University, USA

proof of concept contributions

Alan Hockings - ahockings

The University of Queensland, Australia

application container development (mricron)

Kexin Lou - Kaxnn

The University of Queensland, Australia

application container development (mne/torch,esilpd)

Laurentius (Renzo) Huber - layerfMRI

National Institutes Health, USA

application container development (laynii)

Marcel Zwiers - marcelzwiers

Radboud University, Netherlands

bidscoin

Steering Committee members without code contributions:

Ryan Sullivan, University of Sydney, Key User, Steering Committee
Thomas Close, University of Sydney, Key User, Scientific/Subject Expert Advisory Board
Wojtek Goscinski, Monash University, Steering Committee, Technical Advisory Board
Tony Hannan, Florey Institute of Neuroscience and Mental Health, Scientific/Subject Expert Advisory Board
Gary Egan, Monash University, Steering Committee
Paul Sowman, Macquarie University, Key User, Scientific/Subject Expert Advisory Board
Marta Garrido, University of Melbourne, Key User, Scientific/Subject Expert Advisory Board
Patrick Johnston, Queensland University of Technology, Key User, Scientific/Subject Expert Advisory Board
Aina Puce, Indiana University, Key User, Scientific/Subject Expert Advisory Board
Franco Pestilli, Indiana University, Technical Advisory Board
Levin Kuhlmann, Monash University, Key User, Scientific/Subject Expert Advisory Board
Gershon Spitz, Monash Epworth Rehabilitation Research Centre, Key User, Scientific/Subject Expert Advisory Board
David Abbott, Florey Institute of Neuroscience and Mental Health, Key User, Scientific/Subject Expert Advisory Board
Megan Campbell, The University of Newcastle, Key User, Scientific/Subject Expert Advisory Board
Nigel Rogasch, University of Adelaide, Key User, Scientific/Subject Expert Advisory Board
Will Woods, Swinburne University of Technology, Key User
Satrajit Ghosh, Massachusetts Institute of Technology, Provision of advice only