Which elements to build co-localization workflows? From metrology to analysis

Abstract

Co-localization analysis is one of the main interests of users entering a facility with slides in hands and nice analysis perspectives in mind. While being available through most, if not all, analysis software, co-localization tools are mainly perceived as black boxes, fed with images, that will, hopefully, return (the expected) numbers. In this chapter, we will aim at deconstructing existing generic co-localization workflows, extracting elementary tools that may be reused and recombined to generate new workflows. By differentiating work cases, identifying co-localization reporters and the metrics others have been using, we aim at providing the audience with the elementary bricks and methods to build their really own co-localization workflows. A special emphasis is given on the preparatory phase where the acquisition system is assessed, using basic metrological tests.