• Create informative and interactive visualizations for better interpretation and analysis of the data

• Deliverables include improvements to the existing code, development of features for EEG modules, development of visualization and data pipelines, and comprehensive documentation and tutorials for new features.

• Studies the development of a tiny worm called Caenorhabditis elegans, focusing on how its cells grow and interact from its early stages.This work could help us learn more about basic life processes and improve medical and tissue engineering fields.

• Framework based on LivePose or Pose2Art using only the gestures predifined in MediaPipe, able to interface the chosen camera and the sound-card 
• Model based on MediaPipe holistic model to classifiy dynamic gestures  
• Famework to map gestures to sounds through OSC signals. 
• Few-Shot Learning-based model to dynamically add new gestures

• Build HarmonyHub, a web platform for personalized and engaging learning experiences with variable-pitch instruments like wind instruments (e.g., Trumpet, Flute, Clarinet) and bowed string instruments (e.g., Violin, Viola)

• Enhance model development with NetPyNE’s “batch” subpackage by refactoring the code base for ease of use and scalability

• Incorporating new features into an existing 3D viewer which allows for visualisation of cells and networks using the NeuroML standard

• Upgrade of the existing physiopy packages, peakdet and phys2denoise

• A functional web portal that allows for detailed comments, ratings, and reputation-based filtering, which can improve the quality of research and provide a platform for communities of reviewers to form and manage the reviewing process.

• Implementing Saving and Loading Optimization Settings.
• Implementing Progress Monitoring Functionality.  
• Implementing Saving Optimization Results in an Interpretable Format. 
• Extending UI with Visualization Options for Final and Intermediate Results. 
• Researching and Proposing Additional UI/UX Enhancements.

• A functional web portal that allows for detailed comments, ratings, and reputation-based filtering, which can improve the quality of research and provide a platform for communities of reviewers to form and manage the reviewing process.

• Create a user-friendly and robust Infant Visual Function Measurement System, empowering researchers and clinicians with a powerful tool for early detection and intervention, ultimately leading to better visual development for young children.

• Combine a user-friendly interface with a Large Language Model (LLM) approach to make the annotation of tabular data effortless for researchers.

• Enhancing the LORIS functionality through new modules, increasing test coverage, and developing new API endpoints

• Modularizing the SciCommons frontend, enhancing user experience, implementing small feature enhancements, and integrating private communities and discussion channels.

• Interactive SWC to NeuroML converter in Python

• Improving HNN-core by adding batch simulation functionality
• Tutorials on advanced optimization techniques, specifically focusing on simulation-based inference (SBI), a deep learning-based Bayesian inference method

• Automated Data Collection Tool. 
• Parameter Conversion Script. 
• Simulation Run Framework. 
• Result Validation Report. 
• Documentation and User Guide.

• Implement a Project edit button, file and project rename functionality, fix edit project popup , allow editing list of notebooks , and add images to each type of notebook
• Implement support for Jupyter notebooks. Users should be able to upload, view, and edit Jupyter notebooks on the platform
• Improve the project creation and editing process
• Implement a user permission system to differentiate between project members and followers
• Set up a continuous integration system for automated Docker container generation
• Migrate the project's blob storage to Jetstream   
• Bug Fixes

• Reduce the human effort to manually annotate individual data elements by automating the current annotation tool provided by Neurobagel using Large Language Models (LLMs).

• Messaging interface working within the design language already implemented throughout the site, and incorporate a method to encrypt and store messages on the connected database

• Neuron library which is used for designing your neuron model and setting your parameters
• Statistical measurement tool used for the parameter estimation

• Enhancement of the existing INCF Impact Visualization Portal

• Improve the capability of markdown exporter package inorder to cover multicompartment model, and also to support generation of p.d.f, h.t.m.l , latex file types not only this but also to follow a standard template generation using jinja2 template generation tool ,

• Refactor the Brain's unit system into a standalone package
• Incorporate additional functionalities from other unit packages such as astropi (for type annotations), pint (for integration with matplotlib’s unit system), Quantiphy (for string formatting), and pint-pandas (for integration with pandas).

• Creating a framework with an agent-based model powered by Large Language Models (LLMs)

• Provide a general-purpose workbench that allows biologists and other domain experts to access state-of-the-art techniques in machine learning to achieve excellent image segmentation and classification.

• Make the Neurobagel search process more user-friendly by adding an LLM style chatbot interfac

• Implementation of more features from the Connectivity cockpit of TVB's web interface as interactive widgets primarily the Space-time Visualizer widget and the Connectivity Matrix Editor widget.

Comprehensive dashboard to measure and display INCF impact on global neuroscience and informatics community

• Development of optimization functions for automatic parameter-space searching when modelling simulation
• Algorithm development for more efficient tuning of model parameters

• Develop code to convert publicly available neuroscience datasets to NWB format
• Add structured metadata and annotation to datasets
• Make converted datasets available to NWB Explorer on the Open Source Brain repository

Development and build of Sci-commons, a portal for users to anonymously review, comment on, and rate submitted article

• Develop embedding capability for Jupyter notebooks, Observable HQ notebooks, and Google Colab notebooks on AnalySim site.
• Interactive panel or interface that displays a dataset’s different types of features, including minimum, mean, number of non-zero, and the number of invalid values.
• Ability for users to add publications related to the datasets in a project.

• Remove bootstrap from the application and substitute the design with pure SCSS. 
• Finish implementing the CSS global variables and add component wise CSS variables to improve the reusability of code in the application.
• Add CSV viewing functionality on the datasets of AnalySim to view, filter, and browse through the columns of the file. 
• Create a feature on the Jupyter notebooks to make the Notebooks downloadable.
• Improve the Registration page, Explore section page, and My Dashboard page design.
• Make the design of the application consistent throughout the application to create a great user experience.

• Open-source project scenario simulation
• Factor identification in successful or failing projects for informed decision making and strategy development

• Development of new IO routines for HNN-core objects
• Maintenance of backwards compatibility with HNN-GUI
• Implement hdf5 format for modular data storage

• Improve existing LORIS Codebase and API features
• Write test cases for code changes
• Develop additional features based on need
• Documentation for the new changes

• Development of application suite which integrates hardware devices, deep learning-based infant eye trackers, and visual stimuli analysis
• Development of GUI for easy user experience

• Enhanced SciBERT’s text-to-semantic meaning capture by fine tuning on data corpus and providing alternative and appropriate optimization approaches (e.g., contrastive learning, learning to rank diversely, lambda rank).
• Improved SciBERT’s automatic reviewer assignment

• Methods for optimization implementation in NumPy and Jax
• Plotting functions for HOIs
• HOI o-info integration with Frites Python package

• Implementation of an interface between HippoUnit and Neuroptimus to enable the optimization of a broader range of neuronal behaviors, extend the current supported tests to include all HippoUnit tests.
• Integrate the HippoUnit with the Neuroptimus’s GUI so that users can run optimizations directly from the interface.
• Integration of HippoUnit's useful outputs and plots with Neuroptimus for visualization and analysis purposes.

• Implementation of an interface between HippoUnit and Neuroptimus to enable the optimization of a broader range of neuronal behaviors, extend the current supported tests to include all HippoUnit tests.
• Integrate the HippoUnit with the Neuroptimus’s GUI so that users can run optimizations directly from the interface.
• Integration of HippoUnit's useful outputs and plots with Neuroptimus for visualization and analysis purposes.

• Utilization of the Optuna HPO toolkit to build model of auditory cortex (A1), with particular emphasis on schizophrenia-specific activity patterns
• Quantification and simulation of connectivity and CB1/GABA receptors in A1
• High-fidelity reconstruction of ASSR phenomenon in A1 model

• Demo Jupyter notebook that runs the widget along with a set of classes that handle the features and tunable parameters
• Integration of widget with Xcircuit extension
• Unit test cases for the newly written code and readable documents of the entire project

• Incorporate segmented raw microscopy data into DevoGraph pipeline
• Refactoring of CNN models for understanding biological training datasets
• Tighter integration of DevoGraph as a network structure

• ABM simulation using NETLOGO and GAMA platform
• Development of AR/VR application, compatible with devices such as Meta Quest and Web XR

BrainConnects 2023

• Shared JSON based notation for network specification/generation
• Incorporate NetPyNE UI into OSB

• Google Doc per sub-group conveying recommendations to MathWorks Neuroscience team of 2+ priority existing MATLAB community toolbox projects, plus important new MATLAB community toolbox project opportunities, if any
• Google Doc conveying recommendations to MathWorks product teams of 2+ priority enhancements or issue fixes for the MATLAB and Simulink product families
• Written recommendations of 1+ key project improvements for 2+ identified priority MATLAB community toolbox projects 

• Creation of common SQLite database 
• ASP/IJ GUI integration

• Zenodo API integration with TVB
• Automatic downloading and unzipping of TVB data

• Fully functional extension that can be installed and used with VS code
• Documentation on extension installation and use

• Interactive web-based dashboard for Pydra workers
• Pydra integration with PSI/J for submission and tracking of jobs
• Bokeh implementation in Pydra dashboard
• Examples and tutorials for users

• Making browsing experience less confusing by modifying chapter links and profile tags based on a selected ‘pathway’, rather than displaying all tags associated with a chapter.
• Adding a feature to provide descriptions for each pathway which will improve user experience allowing meaningful use of books by all profile types.
• Implementing the solutions proposed in this application and integrating them into The Turing Way via the open source framework.

• BIDS Specification (v1.7.0) 
• BIDS validator (v1.9.0) 

An app facilitating completion of the template using an onscreen interface

• NIDM specification

BrainConnects 2022

• Detailed list of Quality Control tools for different modalities of neuroimaging 

• Electrophysiology Stimulation Ontology (draft version)
  • Integrating the use of the 1D waveform ontology with NWB

Brainconnects 2021

• BIDSonym application for de-identification of neuroimaging data
• BIDSonym: a BIDS App for the pseudo-anonymization of neuroimaging datasets

“Neuroimaging and Informatics for Successful Aging” Research Topic in Frontiers

• Support for Sonata across NeuroML/PyNN/NetPyNE 

• The Neuron Phenotype Ontology: A FAIR Approach to Proposing and Classifying Neuronal Types (2020)

Brainconnects 2019

• NIDM viewer

• Course on neuroimaging Quality Control 2019 

• DICOM ontology

• Training materials for learning NIDM

• A restful API and client for NIDM