Performance Evaluation of Geospatial Images based on Zarr and Tiff

Autor: Khan, Jaheer, E, Swarup, Ramesh, Rakshit

This evaluate the performance of geospatial image processing using two distinct data storage formats: Zarr and TIFF. Geospatial images, converted to numerous applications like environmental monitoring, urban planning, and disaster management. Traditi

Externí odkaz: http://arxiv.org/abs/2411.11291

A Comparison of HDF5, Zarr, and netCDF4 in Performing Common I/O Operations

Autor: Ambatipudi, Sriniket, Byna, Suren

Scientific data is often stored in files because of the simplicity they provide in managing, transferring, and sharing data. These files are typically structured in a specific arrangement and contain metadata to understand the structure the data is s

Externí odkaz: http://arxiv.org/abs/2207.09503

Using Cloud Computing to Analyze Model Output Archived in Zarr Format.

Autor: GOWAN, TAYLOR A.¹ taylor.mccorkle@utah.edu, HOREL, JOHN D.¹, JACQUES, ALEXANDER A.¹, KOVAC, ADAIR¹

Publikováno v: Journal of Atmospheric & Oceanic Technology. Apr2022, Vol. 39 Issue 4, p449-462. 14p.

OME-Zarr: a cloud-optimized bioimaging file format with international community support.

Autor: Moore J; German BioImaging - Gesellschaft für Mikroskopie und Bildanalyse e.V., Konstanz, Germany., Basurto-Lozada D; Biosciences Institute, Newcastle University, Newcastle upon Tyne, UK., Besson S; Divisions of Molecular Cell and Developmental Biology, and Computational Biology, University of Dundee, Dundee, Scotland, UK., Bogovic J; Janelia Research Campus, Howard Hughes Medical Institute, Ashburn, VA, USA., Bragantini J; Chan Zuckerberg Biohub, San Francisco, CA, United States., Brown EM; Allen Institute for Cell Science, Seattle, WA, USA., Burel JM; Divisions of Molecular Cell and Developmental Biology, and Computational Biology, University of Dundee, Dundee, Scotland, UK., Moreno XC; Science for Life Laboratory, KTH Royal Institute of Technology, Stockholm, Sweden., de Medeiros G; Friedrich Miescher Institute for Biomedical Imaging, Basel, Switzerland., Diel EE; Glencoe Software Inc., Seattle, WA, USA., Gault D; Divisions of Molecular Cell and Developmental Biology, and Computational Biology, University of Dundee, Dundee, Scotland, UK., Ghosh SS; Massachusetts Institute of Technology: Cambridge, MA, USA., Gold I; Harvard Medical School, Boston, MA, USA., Halchenko YO; Dartmouth College, Hanover, NH, USA., Hartley M; European Molecular Biology Laboratory, European Bioinformatics Institute, EMBL-EBI, Cambridge, UK., Horsfall D; Biosciences Institute, Newcastle University, Newcastle upon Tyne, UK., Keller MS; Harvard Medical School, Boston, MA, USA., Kittisopikul M; Janelia Research Campus, Howard Hughes Medical Institute, Ashburn, VA, USA., Kovacs G; Allen Institute for Neural Dynamics, Seattle, WA, USA., Yoldaş AK; European Molecular Biology Laboratory, European Bioinformatics Institute, EMBL-EBI, Cambridge, UK., Kyoda K; RIKEN Center for Biosystems Dynamics Research, Kobe, Japan., de la Villegeorges ALT; scalable minds GmbH, Potsdam, Germany., Li T; Wellcome Sanger Institute, Hinxton, UK., Liberali P; Friedrich Miescher Institute for Biomedical Imaging, Basel, Switzerland., Lindner D; Divisions of Molecular Cell and Developmental Biology, and Computational Biology, University of Dundee, Dundee, Scotland, UK., Linkert M; Glencoe Software Inc., Seattle, WA, USA., Lüthi J; Friedrich Miescher Institute for Biomedical Imaging, Basel, Switzerland., Maitin-Shepard J; Google Research, Mountain View, CA, USA., Manz T; Harvard Medical School, Boston, MA, USA., Marconato L; European Molecular Biology Laboratory (EMBL), Genome Biology Unit, Heidelberg, Germany., McCormick M; Kitware, Inc, Carrboro, NC, USA., Lange M; Chan Zuckerberg Biohub, San Francisco, CA, United States., Mohamed K; Divisions of Molecular Cell and Developmental Biology, and Computational Biology, University of Dundee, Dundee, Scotland, UK., Moore W; Divisions of Molecular Cell and Developmental Biology, and Computational Biology, University of Dundee, Dundee, Scotland, UK., Norlin N; Department of Experimental Medical Science & Lund Bioimaging Centre, Lund University, Lund, Sweden., Ouyang W; Science for Life Laboratory, KTH Royal Institute of Technology, Stockholm, Sweden., Özdemir B; Euro-BioImaging Bio-Hub, EMBL Heidelberg, Germany., Palla G; Institute of Computational Biology, Helmholtz Zentrum München, Neuherberg, Germany., Pape C; Georg-August Universität Göttingen, Germany., Pelkmans L; University of Zurich, Zurich, Switzerland., Pietzsch T; Janelia Research Campus, Howard Hughes Medical Institute, Ashburn, VA, USA., Preibisch S; Janelia Research Campus, Howard Hughes Medical Institute, Ashburn, VA, USA., Prete M; Wellcome Sanger Institute, Hinxton, UK., Rzepka N; scalable minds GmbH, Potsdam, Germany., Samee S; Axle Research and Technology., Schaub N; Information Technology Branch, National Center for Advancing Translational Science, National Institutes of Health., Sidky H; Axle Research and Technology., Solak AC; Chan Zuckerberg Biohub, San Francisco, CA, United States., Stirling DR; Glencoe Software Inc., Seattle, WA, USA., Striebel J; scalable minds GmbH, Potsdam, Germany., Tischer C; EMBL Heidelberg, Germany., Toloudis D; Allen Institute for Cell Science, Seattle, WA, USA., Virshup I; Institute of Computational Biology, Helmholtz Zentrum München, Neuherberg, Germany., Walczysko P; Divisions of Molecular Cell and Developmental Biology, and Computational Biology, University of Dundee, Dundee, Scotland, UK., Watson AM; University of Pittsburgh, Pittsburgh, PA, USA., Weisbart E; Imaging Platform, Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USA., Wong F; Divisions of Molecular Cell and Developmental Biology, and Computational Biology, University of Dundee, Dundee, Scotland, UK., Yamauchi KA; Department of Biosystems Science and Engineering, ETH Zürich, Switzerland., Bayraktar O; Wellcome Sanger Institute, Hinxton, UK., Cimini BA; Imaging Platform, Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USA., Gehlenborg N; Harvard Medical School, Boston, MA, USA., Haniffa M; Wellcome Sanger Institute, Hinxton, UK., Hotaling N; Information Technology Branch, National Center for Advancing Translational Science, National Institutes of Health., Onami S; RIKEN Center for Biosystems Dynamics Research, Kobe, Japan., Royer LA; Chan Zuckerberg Biohub, San Francisco, CA, United States., Saalfeld S; Janelia Research Campus, Howard Hughes Medical Institute, Ashburn, VA, USA., Stegle O; European Molecular Biology Laboratory (EMBL), Genome Biology Unit, Heidelberg, Germany., Theis FJ; Institute of Computational Biology, Helmholtz Zentrum München, Neuherberg, Germany., Swedlow JR; Divisions of Molecular Cell and Developmental Biology, and Computational Biology, University of Dundee, Dundee, Scotland, UK.

Publikováno v: BioRxiv : the preprint server for biology [bioRxiv] 2023 May 07. Date of Electronic Publication: 2023 May 07.

Chapter 14 - Toward scalable reuse of vEM data: OME-Zarr to the rescue

Autor: Rzepka, Norman ^*, Bogovic, John A., Moore, Joshua A.

Publikováno v: In Methods in Cell Biology 2023 177:359-387