September 2-4, 2026 - Max Delbrück Center (MDC), Campus Berlin-Buch
A hands-on hackathon at the intersection of image-based morphological profiling and the scverse ecosystem, jointly organised by scverse, CytoData Society, and EU-OPENSCREEN.
Full details, programme, and registration at scverse.org/morphology2026.
Track 1: Image-based profiling with scverse tooling Integrating Scanpy and AnnData into Cell Painting workflows, from raw image ingestion through CellProfiler-compatible feature extraction to population-level profile aggregation.
Track 2: Single-cell perturbation tools for phenomics Applying pertpy and related tools to JUMP-CP and EU-OPENSCREEN compound collections, multi-omics integration with matched Perturb-seq data, and uncertainty quantification for mechanism-of-action inference.
Track 3: Scalable model training with scverse data standards Using scverse-native tooling such as annbatch with the EU-OPENSCREEN ECBL dataset to build proof-of-concept ML pipelines for large-scale Cell Painting resources.
Analysts and biological scientists experienced in Cell Painting workflows, software developers, computational biologists, and ML researchers. Domain expertise is as critical as technical development. Tasks and project ideas will be tracked as GitHub issues in this repo.
- Email: morphology2026@scverse.org
- Zulip: #2026-09: hackathon-morphology