AUTHOR=Gibbs Holly C. , Mota Sakina M. , Hart Nathan A. , Min Sun Won , Vernino Alex O. , Pritchard Anna L. , Sen Anindito , Vitha Stan , Sarasamma Sreeja , McIntosh Avery L. , Yeh Alvin T. , Lekven Arne C. , McCreedy Dylan A. , Maitland Kristen C. , Perez Lisa M. TITLE=Navigating the Light-Sheet Image Analysis Software Landscape: Concepts for Driving Cohesion From Data Acquisition to Analysis JOURNAL=Frontiers in Cell and Developmental Biology VOLUME=9 YEAR=2021 URL=https://www.frontiersin.org/journals/cell-and-developmental-biology/articles/10.3389/fcell.2021.739079 DOI=10.3389/fcell.2021.739079 ISSN=2296-634X ABSTRACT=
From the combined perspective of biologists, microscope instrumentation developers, imaging core facility scientists, and high performance computing experts, we discuss the challenges faced when selecting imaging and analysis tools in the field of light-sheet microscopy. Our goal is to provide a contextual framework of basic computing concepts that cell and developmental biologists can refer to when mapping the peculiarities of different light-sheet data to specific existing computing environments and image analysis pipelines. We provide our perspective on efficient processes for tool selection and review current hardware and software commonly used in light-sheet image analysis, as well as discuss what ideal tools for the future may look like.