Repositories list

• alliance-linkml-flybase

  Public
  Code for export of FlyBase data to the Alliance LinkML-based persistent store.

  Python

  •

  MIT License

  •0•0•0•1•Updated Nov 24, 2025Nov 24, 2025

• FB_flag_migration

  Public
  scripts and data to handle FlyBase flag data into alliance

  Perl

  •0•0•0•0•Updated Nov 24, 2025Nov 24, 2025

• fuzzy-onions

  Public
  Helper scripts for the FlyBase scRNAseq project

  Python

  •

  MIT License

  •0•0•0•0•Updated Nov 20, 2025Nov 20, 2025

• harvdev-bulk-reports

  Public
  Generate bulk reports for FlyBase curators, users and collaborators.

  Perl

  •

  MIT License

  •0•0•0•0•Updated Nov 12, 2025Nov 12, 2025

• harvdev-docker

  Public
  Docker base image for Harvdev applications.

  Dockerfile

  •

  MIT License

  •0•0•0•0•Updated Nov 11, 2025Nov 11, 2025

• harvdev-XORT

  Public
  MIT License

  •0•0•0•0•Updated Nov 11, 2025Nov 11, 2025

• flybase-controlled-vocabulary

  Public
  The home of the FlyBase miscellaneous ontologies - incorporating the Drosophila Phenotype Ontology (see also FlyBase/drosophila-phenotype-ontology)

  geneticsontologydrosophila+ 3phenotypeflybaseobofoundry

  Shell

  •

  Creative Commons Attribution 4.0 International

  •5•10•0•0•Updated Oct 17, 2025Oct 17, 2025

• drosophila-phenotype-ontology

  Public
  The home of the Drosophila phenotype ontology

  ontologyphenotypeflybase+ 1obofoundry

  Makefile

  •

  Creative Commons Attribution 4.0 International

  •1•5•22•0•Updated Oct 17, 2025Oct 17, 2025

• drosophila-anatomy-developmental-ontology

  Public
  The home of the Drosophila anatomy ontology

  ontologydrosophilaanatomy+ 2flybaseobofoundry

  Jupyter Notebook

  •

  Creative Commons Attribution 4.0 International

  •6•21•12•0•Updated Oct 16, 2025Oct 16, 2025

• drosophila-developmental-ontology

  Public
  The home of the Drosophila developmental ontology, an ontology of Drosophila melanogaster developmental stages.

  developmentontologydrosophila+ 2flybaseobofoundry

  Makefile

  •

  Creative Commons Attribution 4.0 International

  •0•5•0•0•Updated Oct 16, 2025Oct 16, 2025

• harvdev-peeves-parser

  Public
  Stripped down peeves for testing ONLY. May be destroyed later. To run on tests to get idea of peeves messages.

  Perl

  •0•0•0•0•Updated Sep 26, 2025Sep 26, 2025

• harvdev-utils

  Public
  Common Python functions used by FlyBase developers at Harvard.

  Python

  •

  MIT License

  •0•1•0•2•Updated Sep 18, 2025Sep 18, 2025

• blast-db-configuration

  Public
  Code for generating the Alliance BLAST DB configuration file

  Python

  •

  MIT License

  •0•0•0•1•Updated Aug 1, 2025Aug 1, 2025

• flybase.github.io

  Public
  FlyBase - github.io http://flybase.github.io

  JavaScript

  •

  MIT License

  •0•0•0•19•Updated Jul 2, 2025Jul 2, 2025

• chado

  Public
  Chado related code for FlyBase

  PLpgSQL

  •

  MIT License

  •1•0•0•0•Updated Jul 1, 2025Jul 1, 2025

• flybase-ontology-scripts

  Public
  Scripts for working with FlyBase ontologies, currently mostly for report generation.

  Python

  •

  MIT License

  •1•0•0•0•Updated Jun 16, 2025Jun 16, 2025

• website_automated_testing

  Public
  A suite of automated testing scripts for checking the preview website before release.

  Python

  •

  MIT License

  •0•0•0•0•Updated May 14, 2025May 14, 2025

• harvdev-proforma-testdb

  Public
  Repository for creation and loading of the proforma test database.

  PLpgSQL

  •

  MIT License

  •0•2•0•0•Updated Apr 22, 2025Apr 22, 2025

• graphql-server

  Public
  FlyBase GraphQL server (alpha)

  JavaScript

  •

  MIT License

  •0•0•0•2•Updated Mar 27, 2025Mar 27, 2025

• flybase-component-library

  Public
  TypeScript

  •0•0•0•0•Updated Mar 14, 2025Mar 14, 2025

• harvdev-perl-proforma-parser

  Public
  Perl proforma parsing code

  Perl

  •

  GNU General Public License v3.0

  •0•0•0•0•Updated Mar 2, 2025Mar 2, 2025

• cytoscape-widget

  Public
  A React based FlyBase wrapper around Cytoscape for displaying network plots.

  JavaScript

  •

  MIT License

  •1•1•0•1•Updated Oct 4, 2024Oct 4, 2024

• flybase-robot-plugin

  Public
  A ROBOT plugin for the ontology pipelines at FlyBase

  Java

  •

  MIT License

  •0•0•0•0•Updated May 13, 2024May 13, 2024

• bulkfile-scripts

  Public
  Scripts useful for working with bulk FlyBase data locally.

  Perl

  •

  MIT License

  •5•3•0•2•Updated Apr 12, 2024Apr 12, 2024

• biocurator-assistant

  Public
  A Python-based script for processing scientific article data via GPT-4.

  Python

  •

  MIT License

  •0•3•0•0•Updated Feb 12, 2024Feb 12, 2024

• fast-track-your-paper

  Public
  A tool for expediting curation of published research in genetic databases.

  JavaScript

  •

  MIT License

  •0•1•0•10•Updated Jan 21, 2024Jan 21, 2024

• harvdev-gene-identifier

  Public
  Python

  •0•1•0•0•Updated Dec 8, 2023Dec 8, 2023

• alliance-file-browser

  Public
  A repository with a self-contained MongoDB and Mongo Express database viewer for viewing files submitted to the Alliance.

  Shell

  •

  MIT License

  •0•0•0•0•Updated Oct 19, 2023Oct 19, 2023

• CentOS6

  Public
  A repository to compile a Docker image of a CentOS6 operating sytsem.

  Dockerfile

  •

  MIT License

  •0•0•0•0•Updated Oct 3, 2023Oct 3, 2023

• component-library

  Public
  WIP: Test for centralized FB components

  TypeScript

  •0•0•0•0•Updated Jun 20, 2023Jun 20, 2023