Open Problems in Single-Cell Analysis
Formalizing and benchmarking open problems in single-cell genomics.
Visit the Open Problems Website.
Guides
- For contributing guidelines, see CONTRIBUTING.md
- For instructions on editing Docker images, see docker/README.md
- For instructions on using the
openproblems-cli, see openproblems/api/README.md - For a walkthrough of the GitHub Actions workflows and AWS Sagemaker, see SAGEMAKER.md
- For a description of existing an proposed tasks, see TASKS.md
- For a video introduction to this GitHub repository, watch our Repository introduction
- For a video tutorial on adding new tasks, watch our How to add a new task tutorial
The team
Core:
- Scott Gigante (@scottgigante)
- Daniel Burkhardt (@dburkhardt)
- Malte Luecken (@LuckyMD)
- Angela Pisco (@aopisco)
- Olga Botvinnik (@olgabot)
Task authors (alphabetically):
- Emma Dann (@emdann) - Differential abundance
- Wes Lewis (@weslewis) - Differential abundance and data denoising
- Mohammad Lotfallahi (@M0hammadL) - Label projection task
- Qian Qin (@qinqian) - Predicting gene expression from chromatin accessibility
- Daniel Strobl (@danielStrobl) - Batch integration
- Michael Vinyard (@mvinyard) - Stress preservation in dimensionality reduction
- Florian Wagner (@flo-compbio) - Data denoising
Supervision (alphabetically):
- Smita Krishnaswamy, Yale
- Fabian Theis, Helmholtz Munich
Chan Zuckerberg Initiative Support (alphabetically):
- Jonah Cool
- Fiona Griffin