Work

scmorph: a Python package for analysing single-cell morphological profiles

Year: 2025

Type: software-paper

Abstract: scmorph is a Python package to analyse single-cell data from imaging data of cell populations, specifically morphological profiling experiments, which generate large tabular data.scmorph combines domain-specific methods such as single-cell hit calling and batch correction with the versatile and scalable scverse tools to offer feature selection, dimensionality reduction, and more.Overall, scmorph brings together a host of single-cell morphological profiling methods, making it applicable for a wide range of experimental designs and workflows.

Source: The Journal of Open Source Software

DOI: 10.21105/joss.08324

Authors: Jesko Wagner, Hugh Warden, Ava Khamseh, Sjoerd Viktor Beentjes

Institutions: Institute of Genetics and Cancer, MRC Human Genetics Unit, University of Edinburgh, Maxwell Institute for Mathematical Sciences

Language: English

Topic: Single-cell and spatial transcriptomics

Subfield: Molecular Biology

Field: Biochemistry, Genetics and Molecular Biology

Domain: Life Sciences

Open Access status: diamond

Funder: Medical Research Council

OpenAlex ID: W4413446172

Cites: 13

Cited by: 3

Related to: 10