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    38 repositories

    • pombase-python-web

      Public
      Python web code for the PomBase project
      HTML
      •1•0•0•0•Updated Apr 8, 2025Apr 8, 2025

    • pombase-chado-json

      Public
      Read a PomBase Chado database and write it as JSON
      Rust
      •
      MIT License
      •1•1•0•0•Updated Apr 8, 2025Apr 8, 2025

    • fypo

      Public
      Fission Yeast Phenotype Ontology
      obofoundryphenotypesfission-yeastpombase
      Makefile
      •
      Creative Commons Attribution 4.0 International
      •6•16•120•1•Updated Apr 7, 2025Apr 7, 2025

    • pombase-chado

      Public
      PomBase code for accessing Chado
      Perl
      •
      MIT License
      •3•5•49•0•Updated Apr 7, 2025Apr 7, 2025

    • genome_changelog

      Public
      Python
      •
      MIT License
      •1•1•1•0•Updated Apr 6, 2025Apr 6, 2025

    • allele_qc

      Public
      Quality control for PomBase alleles
      Python
      •
      MIT License
      •1•1•10•0•Updated Apr 6, 2025Apr 6, 2025

    • website

      Public template
      PomBase website v2
      fission-yeastpombase
      TypeScript
      •
      MIT License
      •1•6•87•1•Updated Apr 4, 2025Apr 4, 2025

    • pombase-gocam-tool

      Public
      PomBase tool for processing GO-CAM models
      Rust
      •
      MIT License
      •0•0•0•0•Updated Apr 4, 2025Apr 4, 2025

    • pombase-gocam-process

      Public
      Rust
      •
      MIT License
      •0•0•0•0•Updated Apr 4, 2025Apr 4, 2025

    • pombase-gocam

      Public
      GO-CAM JSON model parsing code
      Rust
      •
      MIT License
      •1•0•4•0•Updated Apr 4, 2025Apr 4, 2025

    • canto

      Public
      The PomBase community curation tool
      JavaScript
      •
      Other
      •7•19•180•0•Updated Apr 3, 2025Apr 3, 2025

    • pombase-legacy

      Public
      Code for handling legacy PomBase data
      Perl
      •
      MIT License
      •1•0•0•0•Updated Apr 3, 2025Apr 3, 2025

    • pombase-config

      Public
      Shared configuration for PomBase projects
      Perl
      •2•0•5•0•Updated Mar 28, 2025Mar 28, 2025

    • pombase-historic-go-stats

      Public
      PomBase historic GAF files
      Python
      •0•0•0•0•Updated Mar 16, 2025Mar 16, 2025

    • curation

      Public
      PomBase curation
      biocurationfission-yeastpombase
      0•7•231•0•Updated Jan 28, 2025Jan 28, 2025

    • pombase-domain-process

      Public
      Extract the InterPro data for the PomBase proteins and write as JSON
      Rust
      •0•1•0•0•Updated Dec 2, 2024Dec 2, 2024

    • mitochondrion

      Public
      0•0•21•0•Updated Oct 16, 2024Oct 16, 2024

    • chobo

      Public
      Code for loading OBO files into a Chado database using COPY (prototype)
      Perl
      •1•0•6•0•Updated Jun 6, 2024Jun 6, 2024

    • canto_tutorial

      Public
      A static site with canto documentation for users to get started with Canto.
      Python
      •
      MIT License
      •0•2•0•0•Updated May 17, 2024May 17, 2024

    • wc-gocam-viz

      Public
      Web component to visualize GO-CAMs
      TypeScript
      •
      BSD 3-Clause "New" or "Revised" License
      •2•0•0•0•Updated Nov 7, 2023Nov 7, 2023

    • pombase-python

      Public
      PomBase Python code
      Python
      •
      MIT License
      •0•0•0•0•Updated Nov 1, 2023Nov 1, 2023

    • all_previous_sgd_peptide_sequences

      Public
      A simple set of scripts to generate a file with all old sgd protein sequences
      Python
      •
      MIT License
      •0•0•0•0•Updated Aug 28, 2023Aug 28, 2023

    • runoak_on_pombase

      Public
      runoak on PomBase data
      Shell
      •
      MIT License
      •0•0•0•0•Updated Aug 4, 2023Aug 4, 2023

    • allele_gene_variant_features_regex

      Public
      Regular expression patterns for alllele variant features as described in the publication
      Python
      •
      MIT License
      •0•0•0•0•Updated Jul 12, 2023Jul 12, 2023

    • fypo_templates_spa

      Public
      A simple interface to create FYPO terms from templates
      HTML
      •
      MIT License
      •0•0•0•0•Updated Jun 28, 2023Jun 28, 2023

    • create_pombase_spotlight

      Public
      Small web app to create the text for the spotlight and adapt the image size
      HTML
      •
      MIT License
      •0•0•0•0•Updated Apr 27, 2023Apr 27, 2023

    • ncbi_submission

      Public
      Code for submitting the pombe genome to NCBI
      Python
      •
      MIT License
      •0•1•0•0•Updated Mar 9, 2023Mar 9, 2023

    • goslims2gmt

      Public
      Extract genes associated to go slims and convert them to gmt format using PomBase API
      Python
      •
      MIT License
      •0•0•0•0•Updated Jan 24, 2023Jan 24, 2023

    • jbrowse

      Public
      A modern genome browser built with JavaScript and HTML5.
      JavaScript
      •
      Other
      •198•0•0•0•Updated Jun 26, 2022Jun 26, 2022

    • pombemine-bio-sources

      Public
      Java
      •1•0•0•0•Updated Jun 9, 2022Jun 9, 2022