flowcatchR (version 1.6.2)
Tools to analyze in vivo microscopy imaging data focused on
tracking flowing blood cells
Description
flowcatchR is a set of tools to analyze in vivo microscopy imaging
data, focused on tracking flowing blood cells. It guides the steps from
segmentation to calculation of features, filtering out particles not of
interest, providing also a set of utilities to help checking the quality of
the performed operations (e.g. how good the segmentation was). It allows investigating the
issue of tracking flowing cells such as in blood vessels, to categorize the particles in
flowing, rolling and adherent. This classification is applied in the study of phenomena such as
hemostasis and study of thrombosis development. Moreover, flowcatchR presents an integrated
workflow solution, based on the integration with a Shiny App and Jupyter notebooks, which is
delivered alongside the package, and can enable fully reproducible bioimage analysis in the
R environment.