Note that some boxes have different colors. Configurations for Images, Datasets, and ResourcesĮach box represents one CellProfiler module and the arrows indicate the pipeline flow through the modules.This release will ensure that researchers will have continued access to CellProfiler's powerful computational tools in the coming years. We also evaluated performance and made targeted optimizations to reduce the time and cost associated with running common large-scale analysis pipelines.ĬONCLUSIONS: CellProfiler 4 provides significantly improved performance in complex workflows compared to previous versions. We introduced new modules to expand the capabilities of the software. Based on user feedback, we have made several user interface refinements to improve the usability of the software. RESULTS: Herein we describe CellProfiler 4, a new version of this software with expanded functionality. CellProfiler is a free, open source image analysis program which enables researchers to generate modular pipelines with which to process microscopy images into interpretable measurements. With the expansion of high throughput microscopy methodologies producing increasingly large datasets, automated and objective analysis of the resulting images is essential to effectively extract biological information from this data.
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