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User-friendly high-content imaging analysis on a single desktop: R package H5CellProfiler

Wink, S.; Burger, G. B.; Le Devedec, S. E.; Beltman, J. B.; van de Water, B.

2022-10-08 bioinformatics
10.1101/2022.10.06.511212 bioRxiv
Show abstract

Technological development has led to ever-increasing amounts of data in high-content screening. For utilizing such data in an efficient, thorough, and user-friendly manner we developed the R package H5CellProfiler. H5CellProfiler is based on R packages data.table, ggvis, ggplot2 and shiny. H5CellProfiler launches a browser that allows scientists to analyze large single-cell datasets and make statistical summaries and graphs on their local desktop in a fast and memory-efficient manner. In addition, single-cell track labels are calculated and broken tracks are re-connected based on user-defined thresholds resulting in unique sets of annotated tracks.

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