Repositories list

• wormbase-pipeline

  Public
  Wormbase Build Pipeline

  Perl

  •13•22•11•1•Updated May 6, 2025May 6, 2025

• caltech-curation-services

  Public
  Modular curation services for Caltech WormBase data

  Perl

  •0•1•23•0•Updated May 1, 2025May 1, 2025

• ACKnowledge

  Public
  Author Curation to Knowledgebases

  JavaScript

  •

  MIT License

  •1•2•34•0•Updated Apr 28, 2025Apr 28, 2025

• wbtools

  Public
  Interface to WB curation data, with corpus management and NLP functions

  Python

  •

  MIT License

  •0•2•3•0•Updated Apr 28, 2025Apr 28, 2025

• wormbase_rest

  Public
  This is an API to the datomic database and provides data to catalyst on a per widget basis as well as information for tools like blast.

  Clojure

  •

  GNU General Public License v2.0

  •2•9•5•0•Updated Apr 23, 2025Apr 23, 2025

• website-public

  Public
  WormBase webiste source code public mirror

  HTML

  •11•3•1•39•Updated Apr 16, 2025Apr 16, 2025

• pseudoace

  Public
  Modelling the WormBase ACeDB database in datomic.

  Clojure

  •3•4•6•1•Updated Mar 31, 2025Mar 31, 2025

• website-jbrowse-protein

  Public
  Dockerfile for building protein schematic

  Shell

  •

  MIT License

  •0•0•0•0•Updated Mar 11, 2025Mar 11, 2025

• website-genome-browsers

  Public
  Perl

  •

  MIT License

  •0•1•1•2•Updated Mar 11, 2025Mar 11, 2025

• website-jbrowse-gff

  Public
  Dockerfile for processing GFF data for JBrowse

  Shell

  •

  MIT License

  •0•0•1•0•Updated Mar 11, 2025Mar 11, 2025

• wb_file_generator

  Public
  This file will be mainly used to generate files for populating WormMine

  Clojure

  •

  MIT License

  •1•1•0•0•Updated Feb 20, 2025Feb 20, 2025

• amplify-wb-jbrowse2

  Public
  An AWS Amplify oriented repo for building WormBase's JBrowse 2

  JavaScript

  •

  MIT License

  •0•0•0•0•Updated Feb 3, 2025Feb 3, 2025

• amplify-wb-prot-schematic

  Public
  Repo to drive AWS Amplify builds for the protein browser

  JavaScript

  •

  MIT License

  •0•0•0•0•Updated Jan 28, 2025Jan 28, 2025

• amplify-wb-jbrowse1

  Public
  Repo to drive AWS Amplify builds for JBrowse 1

  JavaScript

  •

  MIT License

  •0•0•0•0•Updated Jan 28, 2025Jan 28, 2025

• entity-extraction-transgene

  Public
  Python

  •0•0•2•0•Updated Dec 14, 2024Dec 14, 2024

• curation-sentence-classification

  Public
  Jupyter Notebook

  •

  MIT License

  •0•0•1•0•Updated Dec 9, 2024Dec 9, 2024

• caltech-tools

  Public
  Misc scripts and forms contributed by WormBase-Caltech.

  Perl

  •1•0•0•0•Updated Oct 22, 2024Oct 22, 2024

• SObA

  Public
  Graph Summary of Ontology-based Annotation

  Perl

  •0•1•0•0•Updated Oct 20, 2024Oct 20, 2024

• db-migration

  Public
  Datomic build of the ACeDB database on AWS

  Python

  •

  MIT License

  •1•0•1•3•Updated Sep 20, 2024Sep 20, 2024

• huggingface-biosentence-classifier

  Public
  Python

  •0•0•0•0•Updated Aug 15, 2024Aug 15, 2024

• wb-search

  Public
  Clojure

  •

  Eclipse Public License 1.0

  •1•0•0•0•Updated Jul 15, 2024Jul 15, 2024

• entity-extraction-antibody

  Public
  Python

  •0•0•0•0•Updated Jul 9, 2024Jul 9, 2024

• wormmine-bio-sources

  Public
  Java

  •0•1•0•0•Updated Jul 5, 2024Jul 5, 2024

• wormicloud

  Public
  Interaction data analysis with word clouds

  JavaScript

  •0•2•8•1•Updated Apr 16, 2024Apr 16, 2024

• names

  Public
  Names and identifiers service for facilitating collaboration between curation databases

  Clojure

  •1•1•1•5•Updated Mar 29, 2024Mar 29, 2024

• wormbase-architecture

  Public
  Python

  •

  GNU General Public License v2.0

  •0•4•0•2•Updated Mar 18, 2024Mar 18, 2024

• amplify-wb-protein-schematic

  Public
  Repo to drive AWS Amplify builds for the protein browser

  0•0•0•0•Updated Jan 11, 2024Jan 11, 2024

• wbps-expression

  Public
  Transcriptomic data for WormBase ParaSite

  Perl

  •2•3•6•0•Updated Jan 10, 2024Jan 10, 2024

• wormcells-viz

  Public
  Visualization tools for C. elegans single cell RNA sequencing data

  JavaScript

  •

  MIT License

  •0•3•16•0•Updated Nov 30, 2023Nov 30, 2023

• entity-extraction-email-addresses

  Public
  Python

  •0•0•0•0•Updated Oct 17, 2023Oct 17, 2023