CellProfiler 4: improvements in speed, utility and usability.
CellProfiler 4: improvements in speed, utility and usability.
复制标题
DOI：
10.1186/s12859-021-04344-9
复制
发表时间：
2021-09-10
影响因子：
3
通讯作者：
Goodman A
中科院分区：
文献类型：
--
作者：
Stirling DR;Swain-Bowden MJ;Lucas AM;Carpenter AE;Cimini BA;Goodman A
成像数据包含了大量的信息，这些信息很难用肉眼来评估。随着高通量显微镜方法的扩展，产生越来越大的数据集，对结果图像的自动化和客观分析对于有效地从这些数据中提取生物信息至关重要。CellProfiler是一个免费的、开源的图像分析程序，它使研究人员能够生成模块化的管道，用它来处理显微镜图像到可解释的测量。在这里，我们描述CellProfiler 4，这个软件的新版本与扩展的功能。根据用户反馈，我们对用户界面进行了一些改进，以提高软件的可用性。我们引入了新的模块来扩展软件的功能。我们还评估了性能，并进行了有针对性的优化，以减少与运行公共大规模分析管道相关的时间和成本。与以前的版本相比，CellProfiler 4在复杂的工作流程中提供了显着改进的性能。该版本将确保研究人员在未来几年继续使用CellProfiler强大的计算工具。在线版本包含补充材料，可在10.1186/s12859-021-04344-9获得。
Imaging data contains a substantial amount of information which can be difficult to evaluate by eye. 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. 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. Herein we describe CellProfiler 4, a new version of this software with expanded functionality. Based on user feedback, we have made several user interface refinements to improve the usability of the software. We introduced new modules to expand the capabilities of the software. We also evaluated performance and made targeted optimizations to reduce the time and cost associated with running common large-scale analysis pipelines. CellProfiler 4 provides significantly improved performance in complex workflows compared to previous versions. This release will ensure that researchers will have continued access to CellProfiler’s powerful computational tools in the coming years. The online version contains supplementary material available at 10.1186/s12859-021-04344-9.