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    166 repositories

    • MARTi

      Public
      Metagenomic Analysis in Real Time
      JavaScript
      •
      MIT License
      •3•0•0•0•Updated Apr 19, 2026Apr 19, 2026

    • cvanmf

      Public
      (bi)crossvalidation for NMF rank selection, and visualisation/analysis tools
      Python
      •
      GNU General Public License v2.0
      •2•1•0•0•Updated Apr 19, 2026Apr 19, 2026

    • COPO-production

      Public
      COPO is a Django-based platform that serves as a metadata broker to describe research data per FAIR principles. It supports community-recognised metadata standa…
      researchgenomicsomics
      researchgenomicsomicsbiodiversitylife-sciencesmetadata-broker
      JavaScript
      •
      MIT License
      •2•5•0•1•Updated Apr 17, 2026Apr 17, 2026

    • CACNA1C_annotations

      Public
      repository for the scripts for the annotation of CACNA1C transcripts expressed in the brain, heart, and aorta
      Shell
      •
      MIT License
      •0•0•0•0•Updated Apr 15, 2026Apr 15, 2026

    • grassroots-web-portal-static-onepage

      Public
      HTML
      •
      MIT License
      •0•0•0•0•Updated Apr 14, 2026Apr 14, 2026

    • SingleCellSchemas

      Public
      For resources related to the EI Cellgen ISP, including metadata mappings and schemas for Single Cell Genomics and Spatial Transcriptomics experiments.
      sequencingschemassingle-cell
      sequencingschemassingle-cellsingle-cell-rna-seqspatial-transcriptomicsearlham-institute
      Python
      •
      Other
      •0•1•0•0•Updated Apr 14, 2026Apr 14, 2026

    • COPO-schemas

      Public
      This repository provides a collection of schemas, or data objects, for representing different types of metadata.
      metadatavalidationschemas
      metadatavalidationschemasdata-standardsresearch-datachecklistscopolife-sciencecopo-projectmetadata-submission
      MIT License
      •0•1•0•2•Updated Apr 13, 2026Apr 13, 2026

    • FlowFI

      Public
      FlowFI is a python-based package for selecting important features for gating of flow cytometry events and analysis of these features.
      Python
      •1•0•0•0•Updated Apr 12, 2026Apr 12, 2026

    • opendata-projects

      Public
      A tool to set the iRODS metadata from a projects store
      Python
      •0•0•0•0•Updated Apr 8, 2026Apr 8, 2026

    • RShaw-PhD-Thesis

      Public
      Supplementary material for Rebecca Shaw's PhD - Genomic implications of severe population bottlenecks in two Mustelid species
      0•0•0•0•Updated Apr 4, 2026Apr 4, 2026

    • COPO-documentation

      Public
      COPO documentation was created using the Sphinx reStructuredText (reST) markup language which is hosted on readthedocs.io. The documentation uses Sphinx.
      metadatasphinxreadthedocs
      metadatasphinxreadthedocssphinx-documentationcopocopo-projectcopo-docs
      Python
      •
      Apache License 2.0
      •0•2•0•2•Updated Apr 1, 2026Apr 1, 2026

    • eista

      Public
      A single-cell spatial transcriptomics pipeline aimed at covering all analysis stages from quantification and clustering to tertiary analyses.
      Python
      •
      MIT License
      •0•2•0•0•Updated Mar 24, 2026Mar 24, 2026

    • eisca

      Public
      A single-cell RNA-seq pipeline aimed at covering all analysis stages from quantification and clustering to tertiary analyses.
      Python
      •
      MIT License
      •1•3•2•0•Updated Mar 24, 2026Mar 24, 2026

    • grassroots_services_django_web

      Public
      JavaScript
      •1•0•0•10•Updated Mar 23, 2026Mar 23, 2026

    • grassroots-service-blast

      Public
      The BLAST services for the Grassroots infrastructure
      C++
      •
      Apache License 2.0
      •0•2•0•0•Updated Mar 23, 2026Mar 23, 2026

    • grassroots-core

      Public
      The core libraries of the Grassroots infratructure
      C
      •
      Apache License 2.0
      •0•1•0•0•Updated Mar 23, 2026Mar 23, 2026

    • grassroots-server-apache-httpd

      Public
      The Apache httpd server module for the Grassroots infrastructure
      C
      •
      Apache License 2.0
      •0•0•0•0•Updated Mar 13, 2026Mar 13, 2026

    • rfparser

      Public
      Parse ResearchFish publications to update CKAN
      Python
      •
      MIT License
      •0•0•0•0•Updated Mar 6, 2026Mar 6, 2026

    • earlham_cellxgene

      Public
      reusable dockerised instance of cellxgene with custom landing page to select between single cell datasets
      Python
      •0•0•0•0•Updated Mar 5, 2026Mar 5, 2026

    • grassroots-service-field-trial

      Public
      A Grassroots service for storing the data for field trials
      C
      •
      Apache License 2.0
      •0•2•0•0•Updated Feb 24, 2026Feb 24, 2026

    • grassroots-lucene

      Public
      Lucene engine customised for Grassroots data
      Java
      •
      Apache License 2.0
      •1•0•0•1•Updated Feb 17, 2026Feb 17, 2026

    • grassroots-client-qt-desktop

      Public
      The desktop Grassroots client application for running services on Grassroots servers
      C++
      •
      Apache License 2.0
      •0•0•0•0•Updated Feb 13, 2026Feb 13, 2026

    • grassroots-accessions-service

      Public
      A Grassroots service for managing and querying various different plant accessions
      C
      •0•0•0•0•Updated Feb 13, 2026Feb 13, 2026

    • grassroots-service-field-pathogenomics

      Public
      The Grassroots service for geolocation and dates of samples of crop pathogenomic data
      C
      •
      Apache License 2.0
      •1•2•0•0•Updated Feb 5, 2026Feb 5, 2026

    • grassroots-build-tools

      Public
      Scripts to manage the building of the different Grassroots infrastructure components
      Shell
      •
      Apache License 2.0
      •0•0•0•0•Updated Feb 5, 2026Feb 5, 2026

    • grassroots-installer

      Public
      Tools to automate the installation of Grassroots
      Shell
      •
      Apache License 2.0
      •0•0•0•0•Updated Feb 5, 2026Feb 5, 2026

    • anndata_injection

      Public
      project to inject anndata files with metadata from COPO schema
      Python
      •
      MIT License
      •0•0•0•0•Updated Jan 30, 2026Jan 30, 2026

    • Scraper_sc

      Public
      This project automates the extraction of structured metadata from scientific papers in PDF format. Using the OpenAI GPT model, it populates a standardised Excel…
      Python
      •
      MIT License
      •0•0•0•0•Updated Jan 7, 2026Jan 7, 2026

    • knowledge_base

      Public
      EI specific documentation (induction materials, tool/method specific advice); contributions made by EI users.
      0•3•0•0•Updated Dec 18, 2025Dec 18, 2025

    • earlham-galaxytools

      Public
      Galaxy tools and workflows developed at the Earlham Institute
      Python
      •
      MIT License
      •15•14•7•3•Updated Dec 8, 2025Dec 8, 2025
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