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. 2022 Jan 27;1:757291. doi: 10.3389/fbinf.2021.757291

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Copyright © 2022 Mitra-Behura, Fiolka and Daetwyler.

This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.

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(A) Overview of a step-by-step protocol to establish a Singularity container. While an image analysis specialist of a facility is required to follow all steps (blue), an end user only needs to run the container (brown) and therefore does not have to deal with setting up the software and its dependencies correctly. (B–D) Resulting segmentation from applying the here described container: (B) Still image of red blood cells (magenta) labelled with Tg (Gata1a:dsRed) (Traver et al., 2003) in a zebrafish embryo with a vascular marker (cyan) Tg (kdrl:eGFP) (Jin et al., 2005). (C) Grey scale image of the labelled red blood cells (D) Resulting segmentation (red) overlayed on the grey scale image (C). Scalebar: 50 um.