Xarray: Multidimensional Labeled Arrays and Datasets in Python
To grow the use of Xarray in the biosciences as a foundational data model and computational toolkit for multidimensional labeled arrays.
Project Lead: Joseph Hamman (NumFOCUS)
A Modular Suite of Advanced Bioimaging Tools with scikit-image and Dash
To bring the combined power of scikit-image and Dash to a larger number of scientists thanks to increased execution speed, interactive image annotation and processing, and outstanding documentation targeting life sciences practitioners.
Project Lead: Emmanuelle Gouillart (Plotly Technologies, Inc.)
A Solid Foundation for Statistics in Python with SciPy
The project will improve the SciPy library’s statistics functionality to better serve biomedical research and downstream projects. In addition, an outreach component will engage female students, inspiring them to participate in open source code development.
Project Lead: Warren Weckesser (University of California, Berkeley; NumFOCUS) | Matt Haberland (California Polytechnic State University, NumFOCUS)
Advancing Microbiome Research Through QIIME 2 Community Development
To support the QIIME 2 user and developer communities by enabling sharing of automatically tested third-party content on the QIIME 2 Library, and hosting our first-ever co-convened user and developer workshop and networking event.
Project Lead: Greg Caporaso (Northern Arizona University)
Comprehensive, Scalable, and Collaborative Single-Cell Analysis with Seurat
To develop extensive functionality, expand user support, and initiate new modes of community outreach for Seurat, an open-source R toolkit for integrative single-cell analysis.
Project Lead: Rahul Satija (New York Genome Center)
Continuous Improvement to Essential High-Throughput Bio-Sequence Aligners
To maintain BWA and improve the performance and robustness of BWA and its next major version BWA-MEM2.
Project Lead: Heng Li (Dana-Farber Cancer Institute)
Cytoscape Explore for Biological Networks Brings Cytoscape to the Cloud
To build Cytoscape Explore, a web-based biological network viewer and editor that will make key aspects of the widely used Cytoscape application accessible to new audiences as part of its evolution from a desktop application to a cloud ecosystem.
Project Lead: Dexter Pratt (University of California, San Diego)
Enabling Differential Analyses of Genomic Data with limma, edgeR and Glimma
To improve ease of use and interoperability of these packages, make methodological responses to new data challenges, refresh the documentation and structure of these packages, and prepare training materials.
Project Lead: Gordon Smyth (Walter and Eliza Hall Institute of Medical Research)
Enhancing the Performance, Documentation, and Data Ecosystem for bedtools
To enhance bedtools’ functionality, documentation, and access to data, which will empower and expand the user community.
Project Lead: Aaron Quinlan (University of Utah)