Enabling open and FAIR neuroscience

Technologies
python, javascript, c/c++, java, tensorflow
Topics
data visualization, big data, neuroscience, brain modelling, neuroimage processing
Enabling open and FAIR neuroscience

The International Neuroinformatics Coordinating Facility (INCF; www.incf.org) is an international organization launched in 2005, following a proposal from the Global Science Forum of the OECD. INCF was established to facilitate and promote the sharing of data and computing resources in the international neuroscience community. A larger objective of INCF is to help develop scalable, portable, and extensible applications that can be used by neuroscience laboratories worldwide.

The mission of INCF is to make neuroscience FAIR (Findable, Accessible, Interoperable and Reusable) by sharing and integrating neuroscience data and knowledge worldwide. We foster scientific community collaboration to develop standards for data sharing, analysis modeling and simulation in order to catalyze insights into brain function in health and disease.

INCF activities are open to all who can contribute to neuroinformatics at the international level. We have a global community of neuroscience researchers working on new and improved tools for all of neuroscience – enabling other researchers to make more and faster discoveries, and improving our understanding of the brain.

2020 Program

Successful Projects

Contributor
VIGNESWARAN C
Mentor
Dan Goodman, Marcel Stimberg
Organization
INCF
IMPROVED MODEL DESCRIPTION FUNCTIONALITY IN BRIAN
Brian is a spiking neural networks simulator, which provides desirable syntactic sugar and flexibility to allow a wide variety of models without...
Contributor
Joanna Stachera
Mentor
Dimiter Prodanov
Organization
INCF
Deep learning using geometric features
ImageJ is an open source Java image processing and analysis library used extensively in biomedical sciences. Active Segmentation is a plugin...
Contributor
Mohammad Asif Hashmi
Mentor
Jordi Huguet, Greg Operto
Organization
INCF
XNAT Dashboards
This project is about creating a responsive dashboard framework for extensive exploration, monitoring, and reviewing large neurological imaging...
Contributor
Mayukh Deb
Mentor
Bradly Alicea
Organization
INCF
Pre-trained models for Developmental Neuroscience
Deep neural networks are not yet being used (at scale) on microscopic images for research. With the right model architecture and training...
Contributor
Amogh Johri
Mentor
Daniele Marinazzo
Organization
INCF
Improving personalized models of fMRI recordings including individual region-specific HRF in The Virtual Brain
The Virtual Brain (TVB) is a neuroinformatics platform for the simulation of the dynamics of large-scale brain networks with biologically realistic...
Contributor
Sarath Chandra
Mentor
Eleftherios Garyfallidis, Shreyas Fadnavis, Bramsh Qamar Chandio
Organization
INCF
MRI Registration using Deep Learning and Implementation of Thin-Plate Splines
Image registration is the process of finding a transformation that aligns one image to another. DIPY currently supports several numerical...
Contributor
Simon Pelletier
Mentor
Christine Rogers
Organization
INCF
LORIS: API development and documentation
LORIS (Longitudinal Online Research and Imaging System) is a web-based data and project management software for neuroimaging research studies. It is...
Contributor
ManviAgarwal
Mentor
Jamie Knight, Thomas Nowotny
Organization
INCF
Benchmarking modern SNN training algorithms on GeNN
In this proposal, I outline how I plan to implement and benchmark five learning rules - reward-modulated STDP, triplet STDP, compeititve STDP,...
Contributor
Ujjwalll
Mentor
Bradly Alicea, Vinay Varma Nadimpalli
Organization
INCF
OpenWorm: OpenDevoCell Integration
This project is about integrating the resources available at the OpenWorm and DevoWorm group. This project will focus on improving the data science...
Contributor
Punit Batra
Mentor
LiaD, Paula Popa
Organization
INCF
TVB: Web GUI for reconstruction pipeline
The project will focus on constructing a Web GUI for Reconstruction pipeline. The reconstruction pipeline takes RMN images as input and processes...
Contributor
Imran Alam
Mentor
Joseph Lizier, benfulcher
Organization
INCF
A reduced time-series feature library to efficiently characterize neural dynamics
Feature extraction is the core aspect of pattern recognition. In the specific domain of NeuroImaging, researchers in the past have formulated...
Contributor
Karim Hasbini
Mentor
Christine Rogers
Organization
INCF
LORIS data visualization proposal
This proposal outlines the steps and experience needed for a javascript based data visualization tool for LORIS through the React framework. A method...
Contributor
Sorenza Bastiaens
Mentor
Rick G, JohnGrif
Organization
INCF
Unit Tests for Large-Scale Brain Network Dynamics
The SciUnit framework was developed to help researchers create unit tests for scientific models. Currently, unit tests exist for models of single...
Contributor
Ayan Banerjee7
Mentor
LiaD, Paula Popa
Organization
INCF
Upgrade and Fix tvb-gdist C++ Library
While running simulation on cortical surfaces we need to calculate geodesic distance as opposed to euclidean distance due to the shape of the...
Contributor
Salman Khan
Mentor
Joseph Lizier, benfulcher
Organization
INCF
Automated comparison of scientific methods for time-series analysis
Time series analysis methods are regularly being developed and we don’t have any resource at present that compares the newly developed method with...
Contributor
Ronaldo Nunes
Mentor
Ankur Sinha, Padraig Gleeson
Organization
INCF
Conversion of large scale cortical models into PyNN/NeuroML
The project Conversion of large scale cortical models into PyNN/NeuroML involves the conversion of published large scale network models into open,...
Contributor
Alexandra Livadas
Mentor
Christine Rogers
Organization
INCF
LORIS Automated Testing
This project aims to improve the automated testing of the LORIS codebase. This will be achieved through writing both unit and integration tests, as...
Contributor
Vergil Haynes
Mentor
Matteo Cantarelli, Padraig Gleeson
Organization
INCF
OSB: Conversion of public neurophysiology datasets to NeuroData Without Borders format
Neuroscience data comes in multiple different data formats and structures. These differences provide a major technical barrier to sharing data...
Contributor
Ronak Doshi
Mentor
Lukas Vareka, Roman Mouček
Organization
INCF
Python-based electroencephalography (EEG) and deep learning workflow system
The Workflow Designer is a prototype web-based application allowing drag-and-drop creating, editing, and running workflows from a predefined library...
Contributor
S. Hussain Ather
Mentor
Rick G, JohnGrif
Organization
INCF
SciUnit Bifurcation analysis
Extending SciUnit model testing to bifurcation models of spin-glass-like neuron network. I would propose to use model parameter optimization based on...
Contributor
Raghavendra
Mentor
Dimiter Prodanov
Organization
INCF
Cell Tracking Using Geometric Features
The project aims to provide a robust mechanism for cell tracking using 2D raw image object.Through the use of Viterbi Dynamic Programming based...