CellProfiler Tracer: exploring and validating high-throughput, time-lapse microscopy image data.
CellProfiler Tracer: exploring and validating high-throughput, time-lapse microscopy image data.
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DOI：
10.1186/s12859-015-0759-x
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发表时间：
2015-11-04
影响因子：
3
通讯作者：
Carpenter AE
中科院分区：
文献类型：
--
作者：
Bray MA;Carpenter AE
细胞图像的延时分析在生物学中是一个重要且日益增长的需求。用于细胞跟踪的算法广泛可用；研究人员一直缺少的是一个单一的开源软件包，可以可视化标准跟踪输出（来自CellProfiler等软件），从而方便地评估跟踪质量，特别是对于研究人员调整高内容延时实验的跟踪参数。这使得质量评估和算法调整成为一项重大挑战，特别是在处理以高吞吐量方式收集的数百个延时电影时。我们介绍了CellProfiler Tracer，一个免费的开源工具，补充了CellProfiler生物图像分析包的对象跟踪功能。Tracer允许在目标轨迹上可视化多参数形态数据，提供已经在科学界验证的可视化，用于延时实验，并将它们与简单的基于图的测量相结合，以突出显示可能的跟踪工件。CellProfiler Tracer是一个有用的，免费的工具，用于对象跟踪数据的检查和质量控制，可从http://www.cellprofiler.org/tracer/。本文的在线版本（doi:10.1186/s12859-015-0759-x）包含补充材料，授权用户可以使用。
Time-lapse analysis of cellular images is an important and growing need in biology. Algorithms for cell tracking are widely available; what researchers have been missing is a single open-source software package to visualize standard tracking output (from software like CellProfiler) in a way that allows convenient assessment of track quality, especially for researchers tuning tracking parameters for high-content time-lapse experiments. This makes quality assessment and algorithm adjustment a substantial challenge, particularly when dealing with hundreds of time-lapse movies collected in a high-throughput manner. We present CellProfiler Tracer, a free and open-source tool that complements the object tracking functionality of the CellProfiler biological image analysis package. Tracer allows multi-parametric morphological data to be visualized on object tracks, providing visualizations that have already been validated within the scientific community for time-lapse experiments, and combining them with simple graph-based measures for highlighting possible tracking artifacts. CellProfiler Tracer is a useful, free tool for inspection and quality control of object tracking data, available from http://www.cellprofiler.org/tracer/. The online version of this article (doi:10.1186/s12859-015-0759-x) contains supplementary material, which is available to authorized users.