CellProfiler 3.0: Next-generation image processing for biology.
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Abstract | CellProfiler has enabled the scientific research community to create flexible, modular image analysis pipelines since its release in 2005. Here, we describe CellProfiler 3.0, a new version of the software supporting both whole-volume and plane-wise analysis of three-dimensional (3D) image stacks, increasingly common in biomedical research. CellProfiler's infrastructure is greatly improved, and we provide a protocol for cloud-based, large-scale image processing. New plugins enable running pretrained deep learning models on images. Designed by and for biologists, CellProfiler equips researchers with powerful computational tools via a well-documented user interface, empowering biologists in all fields to create quantitative, reproducible image analysis workflows. |
Year of Publication | 2018
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Journal | PLoS Biol
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Volume | 16
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Issue | 7
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Pages | e2005970
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Date Published | 2018 07
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ISSN | 1545-7885
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DOI | 10.1371/journal.pbio.2005970
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PubMed ID | 29969450
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PubMed Central ID | PMC6029841
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Grant list | R35 GM122547 / GM / NIGMS NIH HHS / United States
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