Dear Bioconductor Community, I'm pleased to introduce you to the new package we developed, flowcatchR!
flowcatchR is a framework for tracking and analyzing flowing blood cells in time lapse microscopy images. flowcatchR provides a set of tools to analyze in vivo microscopy imaging data, and was developed with a focus on tracking flowing blood cells. flowcatchR guides throughout all the steps of bioimage processing, 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. We address the issue of tracking flowing cells such as the ones in blood vessels, to categorize the particles in flowing, rolling, and adherent by providing a comprehensive analysis of the identified trajectories. The extracted information is then applied in the study of phenomena such as hemostasis and thrombosis development. This is the first toolbox to offer an automated, robust and efficient solution for such scenarios, developed in the R/Bioconductor environment to leverage on advanced statistical modeling and visualization facilities. Our package extends the nice features already available in EBImage, and allows for a complete kinematics analysis. We expect this package to be potentially applied to a wide variety of assays founded on time-lapse microscopy. Of course I would be very happy to obtain suggestions concerning improvements and any other feedback. Therefore, if you share a common interest, I encourage you to test our package for your scenarios, and also to recommend it to people working with time-lapse images. flowcatchR link: http://www.bioconductor.org/packages/release/bioc/html/flowcatchR.html Have a nice time with the new Bioconductor 3.0 and with flowcatchR! Best regards, Federico -- *Federico Marini, M.Sc.* Medical Biostatistics _____________________________________________ University Medical Center of the Johannes Gutenberg University Mainz Institute of Medical Biostatistics, Epidemiology and Informatics (IMBEI) Medical Biostatistics Department Postal address: 55101 Mainz Office and delivery address: Obere Zahlbacher Str. 69, 55131 Mainz www.imbei.uni-mainz.de Phone +49 (0) 6131 17-7029 Fax +49 (0) 6131 17-472433 E-Mail: mari...@uni-mainz.de [[alternative HTML version deleted]] _______________________________________________ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel