Journal
BMC BIOINFORMATICS
Volume 16, Issue -, Pages -Publisher
BIOMED CENTRAL LTD
DOI: 10.1186/s12859-015-0759-x
Keywords
CellProfiler; Time lapse; Quality assessment; Fluorescence microscopy; Image analysis; Data visualization; Data exploration
Categories
Funding
- National Science Foundation [NSF RIG DBI 1119830]
- National Institutes of Health [NIH R01 GM089652]
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Background: 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. Results: 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. Conclusions: CellProfiler Tracer is a useful, free tool for inspection and quality control of object tracking data,
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