CelltrackR: an R package for fast and flexible analysis of immune cell migration data (original) (raw)
New Results
, Katharina Dannenberg, Jeffrey C. Berry, Mark J. Miller, View ORCID ProfileJohannes Textor
doi: https://doi.org/10.1101/670505
Abstract
Summary Visualization of cell migration via time-lapse microscopy has greatly advanced our understanding of the immune system. However, subtle differences in migration dynamics are easily obscured by biases and imaging artifacts. While several analysis methods have been suggested to address these issues, an integrated tool implementing them is currently lacking. Here, we present CelltrackR, an R package containing a diverse set of state-of-the-art analysis methods for (immune) cell tracks. CelltrackR supports the complete pipeline for track analysis by providing methods for data management, quality control, extracting and visualizing migration statistics, clustering tracks, and simulating cell migration.
Availability and Implementation CelltrackR is an open-source package released under the GPL-2 license, and is freely available on GitHub at https://github.com/ingewortel/celltrackR.
Contact mmiller23{at}wustl.edu, Johannes.Textor{at}radboudumc.nl
Copyright
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY 4.0 International license.