Computational Tools for Population-Scale Single Cell Genomics
To develop statistically robust, computationally efficient, and maximally compatible open source software for the design and analyses of multiplexed single-cell sequencing experiments.
Project Lead: Jimmie Ye (University of California, San Francisco)
Connecting Open Source Biomolecular Software Communities
To effectively support community building efforts across open source ecosystems in molecular sciences, improve contributor pipelines, and seek synergies and collaboration opportunities in this space.
Project Lead: Karmen Condic-Jurkic (Open Molecular Software Foundation)
Deep Probabilistic Programming for Biology with Pyro
To accelerate single-cell biology methods research and empower their developers with foundational probabilistic AI software.
Project Lead: Eli Bingham (Broad Institute of MIT and Harvard)
Enhancing Giotto for Spatial Multi-Resolution Technologies
To enhance Giotto by implementing a novel data structure and framework for the abstract representation and analysis of emerging datasets from multi-modal and multi-resolution spatial technologies.
Project Lead: Ruben Dries (Boston Medical Center Corporation / Boston University)
Enhancing High-Level Scientific Computing Support in CuPy
To provide a series of GPU accelerated routines for signal processing and interpolation in CuPy to be a foundation for the research community.
Project Lead: Kenichi Maehashi (NumFOCUS)
Enhancing Spyder IDE Remote Support for Scientific Research in Python
To improve Spyder support for connecting to a remote machine to develop, execute, and debug Python code, as well as installing packages, managing environments and interacting with the remote filesystem.
Project Lead: Carlos Cordoba (Quansight, LLC)
EpiStan: Notebooks and Methods for Disease Modeling in Stan
To build a repository of infectious disease models in Stan that will provide researchers with in-depth examples, helping them to draw sound conclusions and make better predictions from their data.
Project Lead: Mitzi Morris (Columbia University)
Expanding and Deploying Data Visualization Tools for Mining Metagenomes
To expand on existing web infrastructure by building highly intuitive and responsive data visualization tools for mining ‘shotgun’ metagenomic data.
Project Lead: Daniel Beiting (University of Pennsylvania)
Expanding and Modernizing the Salmon Ecosystem
To expand the capabilities and improve the robustness and maintainability of the salmon software ecosystem, further widening its scope of applicability and improving the user and developer experience.
Project Lead: Robert Patro (University of Maryland)