DeepLabCut: A Software Package for Animal Pose Estimation
To provide maintenance, user-focused extensions, education, and support of the growing DeepLabCut software community.
Project Lead: Mackenzie Mathis (École Polytechnique Fédérale de Lausanne (EPFL))
DeepLabCut: An Open Source Toolbox for Robust Animal Pose Estimation
To support the maintenance, new extensions, and education of users of the DeepLabCut software community.
Project Lead: Mackenzie Mathis (Harvard University & Swiss Federal Institute of Technology Lausanne (2020))
DeepLabCut: An Open Source Toolbox for Robust Animal Pose Estimation
To support code maintenance, a new code cookbook, and user education for the DeepLabCut software community and set the foundation towards becoming a sustainable software package for years to come.
Project Lead: Mackenzie Mathis (Harvard University & Swiss Federal Institute of Technology Lausanne)
Delivering High-Quality Bioconductor Training for a Worldwide Community
To expand the global Bioconductor-Carpentries training program, increase equity and accessibility using culturally sensitive AI translation, and build capacity for workshops in Africa
Project Lead: Aedin Culhane (University of Limerick)
Democratizing Deep Learning for Microscopists with DL4MicEverywhere
To establish DL4MicEverywhere, a containerized deep learning for microscopy toolkit extending the easy-to-use ZeroCostDL4Mic, with interactive notebooks for training and deployment across platforms. Note: This proposal was funded by Wellcome Trust as part of our co-funded EOSS Cycle 6.
Project Lead: Ricardo Henriques (Instituto Gulbenkian de Ciência)
ETE Toolkit – Enabling Large Scale Phylogenomic Analysis and Visualization
To enable interactive analysis and exploration of phylogenetic data at the genomics and metagenomics scale.
Project Lead: Jaime Huerta-Cepas (Centro de Biotecnología y Genómica de Plantas (CBGP, UPM/INIA-CSIC))
ETE Toolkit: Phylogenomic Data Analysis and Visualization
To support the release and maintenance of a new version of the ETE toolkit including updated documentation and new features such as tree diff, tree-like regular expression searches, and large tree visualization.
Project Lead: Jaime Huerta Cepas (Centro de Biotecnología y Genómica de Plantas)
Fast Software Package Management for Bio and Data Science
To improve the tooling around the conda ecosystem to better serve the millions of users in biological sciences, data sciences, physics, robotics and other scientific disciplines.
Project Lead: Wolf Vollprecht (conda-forge core, QuantStack, NumFOCUS)
GSVA: Optimizing Gene Set Variation Analysis for Single-Cell Data
To optimize GSVA functionality to analyze single-cell and spatial transcriptomic data sets, increasing its robustness and scalability and improving user interface and documentation.
Project Lead: Robert Castelo (Universitat Pompeu Fabra)