Zarr: A Common Backbone for the Scalable Storage of Annotated Tensor Data
To establish Zarr as a common, cross-community mechanism for storing collections of annotated tensors with consistent access for both local and large-scale cloud data.
Project Lead: Josh Moore (German BioImaging)
Computational Biology Software Maintenance Framework
To reorganize the libSBML and Deviser code bases for better community involvement, spin out part of libSBML as a reusable component for Deviser and other projects, and establish protocols for long-term sustainability of these important resources.
Project Lead: Sarah Keating (University College London)
dynverse: A Toolkit for Studying Cell Development with Single-Cell Omics
Single-cell biology is the application of technologies that enable multi-omics investigation at the level of a single cell. This project will streamline trajectory inference from single-cell omics data by improving integration with upstream and downstream analysis pipelines.
Project Lead: Yvan Saeys (Vlaams Instituut voor Biotechnologie)
Enabling Biomedical Science with Common Workflow Language
To enable portability of complex biomedical workflows across different clouds and on-premise environments via better documentation, community support, and tooling for Common Workflow Language (CWL) with examples using Arvados and from the Personal Genome Project.
Project Lead: Sarah Wait Zaranek (Curii Corporation)
Expanding the Open mHealth Platform to Support Digital Biomarker Discovery
Open mHealth created an open data standard and community for patient-generated data, and the Digital Biomarker Discovery Pipeline will enable transformation of that data into indicators of health outcomes and evaluation of novel digital biomarkers.
Project Lead: Jessilyn Dunn (Duke University)
Improving Usability of Core Neuroscience Analysis Tools with MNE-Python
To enhance usability of MNE-Python through improvements to its computational efficiency, API, interactive visualization capabilities, and the clarity and consistency of documentation.
Project Lead: Daniel McCloy (University of Washington)
Improving User Experience and Engagement for UCSC Xena
To improve the user experience of UCSC Xena and better engage users by implementing the redesign of two core features using UX principles, standardizing training materials, and publishing a blog highlighting research use cases.
Project Lead: Jingchun Zhu (University of California, Santa Cruz)
Nextflow and nf-core: Reproducible Workflows for the Scientific Community
To support a fast-growing, community-building software for infrastructure agnostic, open source biomedical pipelines.
Project Lead: Ellen Sherwood (KTH Royal Institute of Technology)
Open Source Image Registration: The elastix Toolbox
This project will improve accessibility, interoperability, efficiency, and sustainability of the biomedical image registration software elastix by providing complete support of Python, better integration with other software, code improvements, and a focus on community.
Project Lead: Marius Staring (Leiden University Medical Center)