Projects in Awesome Lists tagged with zarr
A curated list of projects in awesome lists tagged with zarr .
https://github.com/zarr-developers/zarr-python
An implementation of chunked, compressed, N-dimensional arrays for Python.
compressed ndimensional-arrays python zarr
Last synced: 11 May 2025
https://github.com/cgohlke/tifffile
Read and write TIFF files.
format-reader image imagej life-sciences-image numpy ome-tiff python tiff whole-slide-imaging zarr
Last synced: 12 Apr 2026
https://github.com/hms-dbmi/viv?tab=readme-ov-file
Library for multiscale visualization of high-resolution multiplexed bioimaging data on the web. Directly renders Zarr and OME-TIFF.
gehlenborglab hubmap imaging ome-tiff openmicroscopy viv zarr
Last synced: 21 Mar 2025
https://github.com/google-research/arco-era5
Recipes for reproducing Analysis-Ready & Cloud Optimized (ARCO) ERA5 datasets.
cloud-optimized ecmwf era5 open-science zarr
Last synced: 16 May 2025
https://github.com/ome/ome-zarr-py
Implementation of next-generation file format (NGFF) specifications for storing bioimaging data in the cloud.
Last synced: 14 Apr 2026
https://github.com/vitessce/vitessce
Vitessce is a visual integration tool for exploration of spatial single-cell experiments.
data-visualization gehlenborglab hidivelab hubmap imaging kharchenkolab single-cell vitessce zarr
Last synced: 14 Apr 2025
https://github.com/gzuidhof/zarr.js
Javascript implementation of Zarr
array data-science gehlenborglab javascript typescript zarr
Last synced: 05 Apr 2025
https://github.com/pangeo-forge/pangeo-forge-recipes
Python library for building Pangeo Forge recipes.
cloud data-engineering etl xarray zarr
Last synced: 21 Feb 2026
https://github.com/hms-dbmi/vizarr
A minimal Zarr image viewer based on Viv.
gehlenborglab imjoy jupyter-notebooks viv zarr
Last synced: 26 Oct 2025
https://github.com/constantinpape/z5
Lightweight C++ and Python interface for datasets in zarr and N5 format
chunked-storage cloud h5py multidimensional-arrays multidimensional-data n5 storage zarr
Last synced: 01 Apr 2026
https://github.com/p2p-ld/numpydantic
Type annotations for specifying, validating, and serializing arrays with arbitrary backends in Pydantic (and beyond)
arrays dask data-modeling hdf5 numpy pydantic pydantic-numpy serialization validation zarr
Last synced: 06 Oct 2025
https://github.com/cubed-dev/cubed
Scalable array processing with bounded memory
distributed-computing ndimensional-arrays numpy python serverless xarray zarr
Last synced: 05 Apr 2025
https://github.com/zarr-developers/zarr-specs
Zarr core protocol for storage and retrieval of N-dimensional typed arrays
Last synced: 25 Jan 2026
https://github.com/weiji14/zen3geo
The 🌏 data science library you've been waiting for~
analysis-ready-data cloud-native cloud-optimized-geotiff composition data-science datapipe earth-observation foss4g geospatial machine-learning-ready-data stac torch torchdata zarr zen
Last synced: 13 Sep 2025
https://github.com/FrontierDevelopmentLab/sat-extractor
Extract Satellite Imagery from public constellations at scale
earth-observation esa satellite satellite-imagery zarr
Last synced: 08 May 2025
https://github.com/djgagne/hagelslag
Hagelslag supports segmentation and tracking of weather fields and scalable verification, including performance diagrams and reliability diagrams.
geojson hail hrrr machine-learning mrms netcdf performance performance-diagram python reliability segmentation storms tracking verification weather zarr
Last synced: 08 May 2025
https://github.com/manzt/zarrita.js
A JavaScript toolkit for working with chunked, compressed, n-dimensional arrays
Last synced: 30 Apr 2025
https://github.com/Orion-AI-Lab/mesogeos
A multi-purpose dataset for data-driven wildfire modeling in the Mediterranean. Deep Learning models for wildfire modeling, e.g. danger forecasting, burned area prediction, etc
datacube deep-learning forests mediterranean wildfire-forecasting zarr
Last synced: 20 Jul 2025
https://github.com/developmentseed/titiler-multidim
TiTiler extension for xarray
Last synced: 23 Jun 2025
https://github.com/xtensor-stack/xtensor-zarr
Implementation of the Zarr core protocol (version 2 and 3) based on xtensor.
Last synced: 06 May 2025
https://github.com/camlab-bioml/rakaia
Scale interactive spatial omics in the browser to thousands of images | https://rakaia.io/
browser histology imaging-mass-cytometry multiplexed-imaging omics spatial-analysis spatial-biology spatial-data spatial-proteomics spatial-transcriptomics viewer visium xenium zarr
Last synced: 08 Mar 2026
https://github.com/janelia-cellmap/cellmap-segmentation-challenge
Repository of scripts to facilitate participation in CellMap's segmentation challenge. This includes downloading data, simple setups for training 2D and 3D models, workflows for prediction and post-processing on out-of-memory arrays, and evaluation of results against validation data.
artificial-intelligence biology machine-learning ome-ngff segmentation zarr
Last synced: 18 Feb 2026
https://github.com/grimbough/rarr
A simple native R reader for Zarr Arrays
ome-zarr on-disk out-of-memory r r-package zarr
Last synced: 07 Apr 2025
https://github.com/zarr-developers/zarr-illustrations-falk-2022
Illustrations created by Henning Falk for the Zarr community
Last synced: 06 May 2025
https://github.com/weiji14/deepicedrain
Mapping and monitoring deep subglacial water activity in Antarctica using remote sensing and machine learning, with ICESat-2!
analysis-ready-data antarctica big-data binder datashader hdf5 ice-sheet icesat-2 intake jupyter-lab open-science pygmt python3 zarr
Last synced: 30 Jun 2025
https://github.com/nasa-jpl/itslive-py
Python client for ITSLIVE glacier ice velocities.
climate-change climate-science glaciers glaciology itslive nasa-data open-data xarray zarr
Last synced: 24 Apr 2025
https://github.com/carderne/zarr-gl
Custom WebGL Zarr layer for Mapbox and Maplibre
Last synced: 10 Apr 2025
https://github.com/saalfeldlab/n5-ij
ImageJ convenience layer for N5
fiji fiji-plugin hdf5 n5 ome-zarr-converter zarr
Last synced: 18 Jan 2026
https://github.com/etienneschalk/scientific-data-viewer
VSCode Extension to explore the metadata of scientific data files
cfgrib climate data data-science geospatial geotiff grib hdf5 netcdf rasterio scientific sentinel visualization xarray zarr
Last synced: 06 Mar 2026
https://github.com/radiocosmology/caput
Cluster Astronomical Python Utilities
Last synced: 31 Jan 2026
https://github.com/m4i-imaging-mass-spectrometry/thyra
A modern Python library for converting Mass Spectrometry Imaging (MSI) data into standardized SpatialData/Zarr format, enabling seamless integration with spatial omics analysis workflows.
bioinformatics bruker data-conversion ecuypers-group imzml m4i-cuypers-group mass-spectrometry mass-spectrometry-imaging msi omics-data-integration scientific-computing spatial-omics spatialdata zarr
Last synced: 25 Feb 2026
https://github.com/weiji14/foss4g2023oceania
The ecosystem of geospatial machine learning tools in the Pangeo world.
datapipe foss4g gpu-direct-storage kvikio machine-learning pangeo xbatcher zarr zen3geo
Last synced: 07 May 2025
https://github.com/khanlab/zarrnii
Package for working with OME-Zarr and NIFTI images in a unified manner, with a focus on spatial transformations
lightsheet-microscopy mri nifti ome-zarr spim transformations zarr
Last synced: 28 Apr 2026
https://github.com/becksteinlab/zarrtraj
zarrtraj MDAKit for @MDAnalysis
file-format mdanalysis molecular-dynamics streaming zarr
Last synced: 23 Apr 2025
https://github.com/linkml/linkml-arrays
Support for loading and dumping N-dimensional arrays in LinkML.
arrays hdmf linked-data linkml multidimensional-arrays numpy zarr
Last synced: 23 Apr 2025
https://github.com/oceanstreamio/oceanstream
Oceanstream is a Python library which can be used as a CLI tool to process raw acoustic data from echosounders. It uses echopype as a backend. Developed at @pineviewlabs
acoustics echopype echosounder ecology netcdf oceanography sonar underwater-acoustics zarr
Last synced: 07 Mar 2026
https://github.com/kalisio/kazarr
Lightweight service for reading and transforming Zarr data
access processing python3 zarr
Last synced: 08 Jan 2026
https://github.com/zarr-developers/zarr-developers.github.io
Zarr Homepage
bioimaging conventions format geospatial ndimensional-arrays zarr
Last synced: 06 May 2025
https://github.com/observingclouds/tape_archive_index
Collection of reference files of data archived on 📼 at DKRZ
car ipfs tape-archive tar zarr
Last synced: 24 Apr 2025
https://github.com/fideus-labs/worker-pool
A Web Worker pool with bounded concurrency, plus a companion package that accelerates zarrita codec operations on Web Workers.
itk-wasm javascript thread-pool typescript web-worker zarr
Last synced: 01 Mar 2026
https://github.com/observingclouds/tar_referencer
Tar reference filesystem, e.g. tar Zarr-files and still access them with ease
Last synced: 25 Feb 2025
https://github.com/zarr-developers/cookiecutter-zarr-store
Cookiecutter for Zarr store implementations
chunked data n-dimensional zarr
Last synced: 16 Jun 2025
https://github.com/zarr-developers/blog
Zarr Official Blog
bioimaging blog data-format geospatial giscus zarr
Last synced: 06 May 2025
https://github.com/mao-wfs/mao-45m-merge
Merge MAO datasets observed with NRO 45m telescope into a single Zarr file
data-merge mao nro45 python radio-astronomy single-dish xarray zarr
Last synced: 16 Jan 2026
https://github.com/zarr-developers/zarr-logo
Official logos for the Zarr project
Last synced: 04 Mar 2026
https://github.com/casangi/graphviper
Dask Based MapReduce for Multi Xarray Datasets.
Last synced: 17 Jan 2026
https://github.com/zarr-developers/zarr-benchmark
Benchmarking the performance of various Zarr implementations, using our perfcapture framework.
Last synced: 29 Jun 2025
https://github.com/jwodder/zarr-checksum-gallery
Various implementations of Dandi Zarr checksumming
benchmarking dandi-zarr-checksum implementation-comparison rust zarr
Last synced: 27 Oct 2025
https://github.com/zarr-developers/zarr-illustrations-falk-2024
Illustrations created by Henning Falk for the Zarr community
Last synced: 13 Jul 2025
https://github.com/difu/kerchunk-test
Testbed to play with kerchunk and grib2 files
Last synced: 13 May 2025
https://github.com/sdsc-ordes/catplus-converters
This repository hosts the CAT+ Zarr converters for different data formats
Last synced: 12 Mar 2025
https://github.com/fabriziomusacchio/zarr_tests
Python code that I used in my blog posts on the Zarr file format.
bioimage-analysis bioimaging microscopy-data microscopy-images ome ome-zarr omero python zarr
Last synced: 17 May 2026
https://github.com/trissim/polystore
Framework-agnostic multi-backend storage abstraction for ML and scientific computing
backend data io jax ml multi-framework numpy pytorch scientific-computing storage tensorflow zarr
Last synced: 12 Apr 2026
https://github.com/annefou/eopf-sample-webinar2
Hands-on for the second EOPF Sample Service Webinar
Last synced: 08 Apr 2025
https://github.com/jwodder/zarr-digest-timings
Timings for various Dandi Zarr checksum implementations
benchmarking dandi-zarr-checksum implementation-comparison python zarr
Last synced: 29 Mar 2025
https://github.com/juntyr/zarr-any-numcodecs
Adapt any numcodecs.abc.Codec into a zarr.abc.Codec
adapter compression numcodecs zarr zarr-v3
Last synced: 09 Apr 2025
