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    375 repositories

    • image-processing-ia

      Public
      Image Processing with Python
      HTML
      •
      Other
      •124•0•0•0•Updated Jul 29, 2025Jul 29, 2025

    • ezomero

      Public
      A module with convenience functions for writing Python code that interacts with OMERO.
      omeroomero-serverimaging-solutionsomero-apipython
      Python
      •
      GNU General Public License v2.0
      •19•45•3•1•Updated Jul 27, 2025Jul 27, 2025

    • bioimaging-tasks-to-tools

      Public
      Quick reference for selecting the right open source tool for a bioimage analysis task.
      CSS
      •
      Creative Commons Attribution 4.0 International
      •0•1•2•0•Updated Jul 25, 2025Jul 25, 2025

    • rit-imageanalysis-containers

      Public
      Making it easier for users to spin up a Singularity container with image analysis tools from a slurm-based cluster
      imaging-solutions
      Shell
      •
      MIT License
      •3•5•1•0•Updated Jul 25, 2025Jul 25, 2025

    • jax-omeroutils

      Public
      A module and scripts for working with OMERO
      omeroomero-importimaging-solutions
      Python
      •
      GNU General Public License v2.0
      •3•6•4•1•Updated Jul 24, 2025Jul 24, 2025

    • ClimbToLabguruExporter

      Public
      Basic tools for exporting sample data from Climb into Labguru
      Python
      •
      MIT License
      •0•1•0•0•Updated Jul 24, 2025Jul 24, 2025

    • geneweaver-legacy

      Public
      JavaScript
      •0•1•25•1•Updated Jul 23, 2025Jul 23, 2025

    • cs-nf-test

      Public
      Repository for hosting test data for cs-nf-pipelines
      MIT License
      •0•0•0•0•Updated Jul 21, 2025Jul 21, 2025

    • activelearning

      Public
      Active learning tools for fine-tuning ML models
      Python
      •
      MIT License
      •0•6•0•0•Updated Jul 17, 2025Jul 17, 2025

    • nf-tenx

      Public
      All 10x Genomics processing pipelines rolled into one containerized pipelines
      bioinformaticspipeline
      Groovy
      •
      MIT License
      •1•7•3•1•Updated Jul 16, 2025Jul 16, 2025

    • ontology-service

      Public
      A generic ontology term microservice
      Java
      •1•7•5•0•Updated Jul 15, 2025Jul 15, 2025

    • pdxnet-image-analysis-aacr2022

      Public
      Regional classification and other analysis of PDXNet H&E images for AACR 2022
      Jupyter Notebook
      •
      MIT License
      •0•0•0•0•Updated Jul 11, 2025Jul 11, 2025

    • envisionR

      Public
      R library for analysis of datasets from the JAX Envision™ platform
      HTML
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Jul 11, 2025Jul 11, 2025

    • quilt-nf

      Public
      R
      •0•1•0•0•Updated Jul 8, 2025Jul 8, 2025

    • DccXmlGenerator

      Public
      This is the Python version of the DCC XML file generator.
      Python
      •0•0•0•0•Updated Jul 1, 2025Jul 1, 2025

    • cs-nf-pipelines

      Public
      The Jackson Laboratory Computational Sciences Nextflow based analysis pipelines
      Nextflow
      •
      MIT License
      •10•22•0•0•Updated Jun 30, 2025Jun 30, 2025

    • Images_Import_Scripts

      Public
      Python
      •0•0•0•0•Updated Jun 18, 2025Jun 18, 2025

    • LIRICAL

      Public
      LIkelihood Ratio Interpretation of Clinical AbnormaLities
      Java
      •
      Other
      •11•29•6•2•Updated Jun 17, 2025Jun 17, 2025

    • Galaxy_Tools_CBA

      Public
      This is the Python and config files for the CBA tools deployed in Galaxy
      Python
      •0•0•0•0•Updated Jun 10, 2025Jun 10, 2025

    • haplotype_reconstruction_qtl-nf

      Public
      R
      •0•0•1•0•Updated Jun 4, 2025Jun 4, 2025

    • intro-napari-workshop

      Public
      Intro to napari Workshop
      visualizationpythonnapari
      BSD 3-Clause "New" or "Revised" License
      •2•1•0•0•Updated May 30, 2025May 30, 2025

    • zarrdataset

      Public
      A dataset for loading zarr files to be used in machine learning training pipelines
      imaging-solutions
      Python
      •
      MIT License
      •4•35•2•1•Updated May 28, 2025May 28, 2025

    • intro-napari-slides

      Public
      Introductory slideshow to napari
      MIT License
      •1•0•1•0•Updated May 27, 2025May 27, 2025

    • jax-ngff-challenge-2024

      Public
      1•0•0•0•Updated May 27, 2025May 27, 2025

    • ClintLR

      Public
      Clinical intuition with likelihood ratios
      Java
      •
      MIT License
      •1•6•2•1•Updated May 23, 2025May 23, 2025

    • hpo-web

      Public
      a web application to search and navigate the Human Phenotype Ontology (HPO)
      groovyhpograils3angular
      HTML
      •
      Other
      •12•14•11•9•Updated May 20, 2025May 20, 2025

    • ClimbR

      Public archive
      R
      •0•0•0•0•Updated May 20, 2025May 20, 2025

    • mvar-frontend

      Public
      MVAR angular frontend application
      SCSS
      •
      MIT License
      •0•0•0•0•Updated May 14, 2025May 14, 2025

    • POET

      Public
      A curation application for HPO and MAxO
      Java
      •0•2•17•0•Updated May 11, 2025May 11, 2025

    • STQ

      Public
      Spatial Transcriptomics Quantification pipeline for 10x Visium and H&E-stained whole slide images
      spatial-transcriptomicsrna-velocityvisiumxenomehe-stained-wsixengsortspecies-deconvolution
      Nextflow
      •
      MIT License
      •3•20•2•0•Updated May 6, 2025May 6, 2025