coSMicQC
Table of Contents
coSMicQC (Single-cell Morphology Quality Control) identifies and removes low-quality cells from image-based profiling datasets before downstream analysis. It catches common problems such as over-segmented nuclei, poorly segmented cells, and imaging artifacts.
Key capabilities:
- Flag over-segmented, under-segmented, and poorly focused cells
- Apply threshold-based or z-score-based QC criteria
- Generate summary reports of QC outcomes
- Integrate seamlessly with CytoTable and pycytominer workflows
Publication #
bioRxiv Preprint · 2025
Stellar quality control for single-cell image-based profiling with coSMicQC
Tomkinson J, Bunten D, Way GP