biostudies-literatureUnknown7(7)Fernandez-Gutierrez MM<h4>Background</h4>In vitro scratch assays have been widely used to study the influence of bioactive substances on the processes of cell migration and proliferation that are involved in re-epithelialization. The development of high-throughput microscopy and image analysis has enabled scratch assays to become compatible with high-throughput research. However, effective processing and in-depth analysis of such high-throughput image datasets are far from trivial and require integration of multiple image processing and data extraction software tools.<h4>Findings</h4>We developed and implemented a kinetic re-epithelialization analysis pipeline (KREAP) in Galaxy. The KREAP toolbox incorporates freely available image analysis tools and automatically performs image segmentation and feature extractGigaSciencehttps://www.ebi.ac.uk/biostudies/studies/S-EPMC6048990biostudies-literatureKREAP: an automated Galaxy platform to quantify in vitro re-epithelialization kinetics.PMC6048990van Zessen DBHKleerebezem MStubbs APvan Baarlen PFernandez-Gutierrez MMfalseKREAP: an automated Galaxy platform to quantify in vitro re-epithelialization kinetics.<h4>Background</h4>In vitro scratch assays have been widely used to study the influence of bioactive substances on the processes of cell migration and proliferation that are involved in re-epithelialization. The development of high-throughput microscopy and image analysis has enabled scratch assays to become compatible with high-throughput research. However, effective processing and in-depth analysis of such high-throughput image datasets are far from trivial and require integration of multiple image processing and data extraction software tools.<h4>Findings</h4>We developed and implemented a kinetic re-epithelialization analysis pipeline (KREAP) in Galaxy. The KREAP toolbox incorporates freely available image analysis tools and automatically performs image segmentation and feature extract2018-01-01T00:00:00Z2018 Jul2026-05-04T16:51:07.423Z2026-04-07T20:41:24.104ZS-EPMC60489902996184910.1093/gigascience/giy078