Alternatives and similar repositories for edam-bioimaging

Users that are interested in edam-bioimaging are comparing it to the libraries listed below

• ome / omero-figure
  An OMERO.web app for creating Figures from images in OMERO
  ☆17Updated last week
• NL-BioImaging / biomero
  BIOMERO - A python library for easy connecting between OMERO (jobs) and a Slurm cluster
  ☆24Updated this week
• IDR / idr-notebooks
  Jupyter Notebooks for the Image Data Resource
  ☆18Updated 3 years ago
• fmicompbio / ez_zarr
  GIve easy, high-level access to ome-zarr fileset
  ☆21Updated last month
• BioImageTools / ome-zarr-image-analysis-nextflow
  Basic example of using OME-Zarr in a Nextflow pipeline
  ☆17Updated 3 months ago
• mobie / mobie-viewer-fiji
  ☆39Updated last week
• ABIF-McGill / MethodsJ2
  MethodsJ2
  ☆14Updated 3 years ago
• TheJacksonLaboratory / ezomero
  A module with convenience functions for writing Python code that interacts with OMERO.
  ☆45Updated this week
• VasylVaskivskyi / microaligner
  Image registration (alignment) software for large microscopy images
  ☆25Updated 2 years ago
• JaneliaSciComp / multifish
  EASI-FISH analysis pipeline for spatial transcriptomics
  ☆35Updated 11 months ago
• German-BioImaging / omero-rdf
  A plugin for exporting RDF from OMERO
  ☆15Updated last month
• ome / ome-model
  OME model (specification, code generator, implementation)
  ☆16Updated 3 months ago
• ome / ome2024-ngff-challenge
  Project planning and material repository for the 2024 challenge to generate 1 PB of OME-Zarr data
  ☆20Updated 3 weeks ago
• JaneliaSciComp / exllsm-circuit-reconstruction
  Nextflow pipeline encapsulating workflows for analyzing expansion lattice light-sheet microscopy (ExLLSM) imagery
  ☆13Updated 6 months ago
• royerlab / inTRACKtive
  Interactive visualization and sharing of cell tracking data in the browser
  ☆40Updated this week
• hinderling / napari_pixel_classifier
  An Ilastik-like interactive pixel classifier.
  ☆16Updated last year
• flevet / PoCA
  ☆21Updated 3 weeks ago
• clij / clij
  CLIJ is deprecated. Visit CLIJ2
  ☆56Updated 4 years ago
• wahlby-lab / graph-iss
  Graph-based Decoding for In Situ Sequencing
  ☆10Updated 5 years ago
• DanuserLab / u-shape3D
  Detect morphological motifs, such as blebs, filopodia, and lamellipodia, from 3D images of surfaces, particularly images of cell surfaces…
  ☆29Updated 6 months ago
• PreibischLab / RS-FISH
  Tool for precise, interactive, fast and scalable FISH spot detection
  ☆50Updated 8 months ago
• BIOP / EasyXT-FIJI
  Commands and Classes for interfacing between Imaris and Fiji
  ☆12Updated last year
• TheJacksonLaboratory / dask_relabeling
  A relabeling tool for tiled segmentation with Dask
  ☆16Updated last year
• ome / omero-py
  Python project containing Ice remoting code for OMERO
  ☆27Updated 3 weeks ago
• spatial-image / spatial-image
  A multi-dimensional spatial image data structure for scientific Python.
  ☆43Updated 2 months ago
• ome / omero-cli-zarr
  ☆18Updated 2 weeks ago
• sofroniewn / napari-training-course
  Lectures for a napari training course
  ☆51Updated 2 years ago
• Euro-BioImaging / BatchConvert
  A nextflow based tool that wraps bfconvert and bioformats2raw to convert image data collections to OME-TIFF and OME-Zarr, respectively, i…
  ☆24Updated 7 months ago
• scalableminds / webknossos-libs
  Python API and CLI tools for working with WEBKNOSSOS datasets, annotations and server interactions. Includes converter to OME-Zarr.
  ☆26Updated last week
• ome / omero-ms-zarr
  Experimental micro-service for implementing the Zarr spec over HTTP
  ☆18Updated 3 weeks ago