Python package for image-based profiling
An in-memory data analysis format for single-cell profiles alongside their corresponding images and segmentation masks.
Single cell Morphology Quality Control (coSMicQC)
Software to classify biological phenotypes from single-cell image-based morphology profiles
Predicting drug polypharmacology from cell morphology readouts using variational autoencoder latent space arithmetic
Exploratory data analysis for image-based morphological profiling
Implementation of DEEP-MAP (see reference)
Tutorials and helpers for downstream analysis of Cell Painting data with scverse tools (anndata, scanpy, decoupler, pertpy, squidpy, rapids-singlecell)
Predict a compound's mechanism of action from cell images. End-to-end reproducible pipeline on open Cell Painting data: 5-channel microscopy → segmentation → morphological fingerprints → MoA retrieval.
Batch integration for morphological profiling using variational inference
Validate the semantic correctness, metadata completeness, provenance and AI readiness of Cell Painting datasets represented in AnnData.
To associate your repository with the image-based-profiling topic, visit your repo's landing page and select "manage topics."