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CellProfiler 3.0: Next-generation image processing for biology

McQuin, Claire ; Goodman, Allen ; Chernyshev, Vasiliy ; Kamentsky, Lee ; Cimini, Beth A ; Karhohs, Kyle W ; Doan, Minh ; Ding, Liya ; Rafelski, Susanne M ; Thirstrup, Derek ; Wiegraebe, Winfried ; Singh, Shantanu ; Becker, Tim ; Caicedo, Juan C ; Carpenter, Anne E Misteli, Tom

PLoS Biology, 2018-07, Vol.16 (7), p.e2005970-e2005970 [Periódico revisado por pares]

United States: Public Library of Science

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Título:
CellProfiler 3.0: Next-generation image processing for biology
Autor: McQuin, Claire ; Goodman, Allen ; Chernyshev, Vasiliy ; Kamentsky, Lee ; Cimini, Beth A ; Karhohs, Kyle W ; Doan, Minh ; Ding, Liya ; Rafelski, Susanne M ; Thirstrup, Derek ; Wiegraebe, Winfried ; Singh, Shantanu ; Becker, Tim ; Caicedo, Juan C ; Carpenter, Anne E
Misteli, Tom
Assuntos: Algorithms ; Animals ; Automation ; Bioinformatics ; Biologists ; Biology and Life Sciences ; Cell Nucleus - metabolism ; Cells (Biology) ; Computer and Information Sciences ; Computer applications ; Deep Learning ; DNA - metabolism ; Ebola virus ; Ecosystem biology ; Engineering and Technology ; Forecasts and trends ; Humans ; Image analysis ; Image processing ; Image Processing, Computer-Assisted ; Imaging, Three-Dimensional ; Induced Pluripotent Stem Cells - cytology ; Induced Pluripotent Stem Cells - metabolism ; Machine learning ; Methods ; Methods and Resources ; Mice ; Microscopy ; Neural networks ; Observations ; People and Places ; Physical Sciences ; Research and Analysis Methods ; RNA, Messenger - genetics ; RNA, Messenger - metabolism ; Science Policy ; Scientific software ; Software ; Stem cells ; Supervision ; Three dimensional analysis ; Usability
É parte de: PLoS Biology, 2018-07, Vol.16 (7), p.e2005970-e2005970
Notas: ObjectType-Article-1
SourceType-Scholarly Journals-1
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The authors have declared that no competing interests exist.
Descrição: 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.
Editor: United States: Public Library of Science
Idioma: Inglês

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CellProfiler 3.0: Next-generation image processing for biology

McQuin, Claire ; Goodman, Allen ; Chernyshev, Vasiliy ; Kamentsky, Lee ; Cimini, Beth A ; Karhohs, Kyle W ; Doan, Minh ; Ding, Liya ; Rafelski, Susanne M ; Thirstrup, Derek ; Wiegraebe, Winfried ; Singh, Shantanu ; Becker, Tim ; Caicedo, Juan C ; Carpenter, Anne E Misteli, Tom

United States: Public Library of Science

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