https://chanzuckerberg.com/eoss/proposals/?cycle=1,2,3,4,5,6,d-i,
The Chan Zuckerberg Initiative (CZI) has funded numerous open source software projects through its Essential Open Source Software for Science (EOSS) program. Here is a list of some of the funded projects with brief descriptions:
Cycle 1
- BioDynaMo: A platform for agent-based simulation of biological systems.
- Bioconda: A distribution of bioinformatics software using conda.
- CellProfiler: Software for quantitative analysis of biological images.
- Cytoscape: An open-source platform for visualizing complex networks.
- DeepLabCut: A toolbox for markerless pose estimation of animals.
- Galaxy: An open, web-based platform for data-intensive biomedical research.
- iSEE: Interactive visualization of single-cell data.
- Jupyter Notebooks: A web-based interactive computing platform.
- OpenMM: A high-performance toolkit for molecular simulations.
- scikit-image: Image processing in Python.
Cycle 2
- Bioconda: Continued support for the software distribution.
- CellProfiler Analyst: Extension for machine learning-based image analysis.
- Napari: Multi-dimensional image viewer for Python.
- Pandas: Data structures for data analysis in Python.
- Rao Lab’s HiGlass: Tool for exploring large genomic contact maps.
- Scanpy: Scalable analysis of single-cell RNA sequencing data.
Cycle 3
- CWL-Airflow: Workflow engine based on Apache Airflow.
- Galaxy: Continued support for the platform.
- Pangeo: Community platform for big data geoscience.
- Project Jupyter: Further development of Jupyter Notebooks.
- Sourmash: Scalable search of genomic data.
Cycle 4
- GEMmaker: RNA-Seq pipeline tool.
- Jupyter Book: Interactive, computational documents for data science.
- NCBI BLAST+: Tool for comparing gene and protein sequences.
- Scanpy: Continued support for single-cell RNA sequencing analysis.
Cycle 5
- Community and Code: Promoting diversity in open source.
- DeepLabCut: Continued support for animal pose estimation.
- OpenMM: Further development for molecular simulations.
- QHub: Managed JupyterHub deployments for collaborative research.
- SciPy: Python-based ecosystem for mathematics, science, and engineering.
Cycle 6
- BioSimSpace: Computational toolset for molecular simulations.
- MetPy: Meteorological data analysis tools in Python.
- Open Data Cube: Platform for analyzing large-scale Earth observation data.
- TOPMed DCC: Data coordination for Trans-Omics for Precision Medicine.