Longitudinal Acquisition, Storage and Curation, Interoperability, Reproducibility, Transfer, Anonymization, Security, Privacy, Ethics, APIs, Validation, Quality Control, Protocol Checking, Preprocessing, Analysis, HPC, Provenance, Ontological Standarization, Data Harmonization, Upgrades, Maintenance, Bug Fixes, User Interface, Javascript, Bootstrap, Tracking, Extensibility, Data Management, Summary Statistics, Workflows, Development, Tool Integration, Data Sharing, Download, Multi-Modal Linking, Querying, Image Processing, Visualization, Networking, System Administration, Partnerships, Funding, HR ...No big deal!
Benefits vs Challenges
“..is a modular and extensible web-based data and project management software for neuroimaging research studies. It is an OPEN SOURCE framework and database suitable for managing large datasets.” |
Heterogenous data acquisition |
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Storage, processing & dissemination |
DATA ENTRY
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1. Acquisition & Storage
2. Visualisation: Imaging Browser, BrainBrowser
3. Quality Control: Radiological Review Module, DCC MRI
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“We’re doing a really shitty job." -- Guy Rouleau |
For list of 400+ instruments: https://sites.google.com/site/lorisinstrumentlist
..a set of web-based 3D visualization tools primarily used for viewing neurological data i.e. MRI scans.
It allows for real-time manipulation and analysis of 3D neuroimaging data through any modern web browser. TRY ME!
Easier Installation
DQT integration and improvements
API for imaging
Imaging Browser Enhancements
Documentation - help sections, wikis, code!
Automated Testing
Genomics
QC modules
Better stats
Reduce rependencies - i.e. Quickforms
https://github.com/aces/Loris
Dedicated developer! (software is free of charge)
LINUX based server
LAMP stack
Perl and other peripheral libraries (i.e DCMTK)
Beer for Samir
Proper resourcing
Reaslitic roadmap
Create use cases
Regular discussions
Beer for Samir
Website: www.loris.ca
Demo: https://demo.loris.ca
LORIS developers mailing list: loris-dev@bic.mni.mcgill.ca
Source code: https://github.com/aces/Loris
"You don't understand... LORIS saved our lives ... We could share our data anywhere. LORIS makes it really hard to share incorrect data. The quality control data is right there. You can share the QC... it's so well QCed" -- Angelina Paolozza (NeuroDevenet, 2015)
Organize your data
Enable Quality Control
Easy data sharing
Provenance capture
Facilitate image visualization
Summary statistics
Facilitate statistical analysis
Linking your data across modalities
Online Data Querying
Centralized data repository
Download data from one place
Centralized Document Repoistory
Backup your data
Consent is factored in
Anonimyzed automatically online
Raw data can be accessed (e.g. DICOM archiver)
Tablet Friendly - Survey module
Public Data Repositories
Collaborative Data releases
CBRAIN hooks
Ontologicial standardization (e.g. BIDS)
External Provenance (e.g. NIDM)
Interoperability with other competitors
Open Science at the MNI
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Thank you!Acknowledgements: Alan Evans, Alex Zijdenbos, Dario Vins, Jonathan Harlap, Matt Charlet, Andrew Corderey, Sebastian Muehlboeck, Reza Adalat, Louis Collins, Vladimir Fonov, Marc Rousseau, Mia Petkova, Rathi Gnanasekaran, David Brownlee, Tarek Sherif, Pierre Rioux, Nic Kassis, Leigh MacIntyre, Claude Lepage, Ilana Leppert, Natasha Beck, Tristan Glatard, Bert Vincent, Lindsay Lewis, Najma Mahani, Elodie Portales-Casamar, Alden Woodward, Sylvain Milot, Jean Francois Malouin, Sylvain Baillet, Daniel Kroetz, Martin Weiss, Mathieu Desrosier, Jason Karamchandani, Amit Bar-Or, Ted Fon, John Brietner, Derek Lo, Patrick Bermudez, Chris Steele, Pamela Patterson and one of my favourites: Pierre Bellec! LORIS team on left |