Repositories list

• gene-function-registry

  Public
  A set of records (pages) for collecting information about gene function in a human- and machine-readable format.

  Perl

  •2•0•1•1•Updated Jan 28, 2026Jan 28, 2026

• datastore-metadata

  Public
  All the LIS Datastore YAML files under one roof.

  0•0•0•0•Updated Jan 28, 2026Jan 28, 2026

• datastore-specifications

  Public
  Specifications for directory naming, file naming, file contents in the LIS datastore

  Shell

  •0•3•15•0•Updated Jan 28, 2026Jan 28, 2026

• datastore-registry

  Public
  Registry of unique KEY4 keys and their associated Genus-species-collection information

  Perl

  •0•1•0•0•Updated Jan 28, 2026Jan 28, 2026

• microservices

  Public
  A collection of microservices developed and maintained by the Legume Information System

  pythondockerredis+ 4bioinformaticsmicroservicesgrpcasyncio

  Python

  •

  Apache License 2.0

  •2•3•16•68•Updated Jan 28, 2026Jan 28, 2026

• pandagma

  Public
  Generate pan-gene sets, given a collection of genome assemblies and corresponding gene models.

  Shell

  •

  BSD 3-Clause "New" or "Revised" License

  •1•20•6•0•Updated Jan 28, 2026Jan 28, 2026

• web-components-graphql

  Public
  A TypeScript library that provides code for usng LIS Web Components with the LIS GraphQL Server

  TypeScript

  •

  Apache License 2.0

  •0•0•0•4•Updated Jan 27, 2026Jan 27, 2026

• jbrowse-plugin-dynamic-synteny

  Public
  JBrowse plugin for using synteny data from API endpoints automagically

  TypeScript

  •

  Apache License 2.0

  •0•0•0•0•Updated Jan 22, 2026Jan 22, 2026

• graphql-server

  Public
  A GraphQL server that supports the Legume Information System and related biodata websites

  graphqlmicroservicestypescript+ 3biologyinterminelegumes

  TypeScript

  •

  Apache License 2.0

  •3•3•8•4•Updated Jan 21, 2026Jan 21, 2026

• DSCensor

  Public
  Process LIS Datastore and Provide Web Facing RESTFUL API

  Python

  •

  Apache License 2.0

  •0•0•1•1•Updated Jan 19, 2026Jan 19, 2026

• ShinyCell2

  Public
  ShinyCell2 is a lightweight R package for building interactive, shareable apps to explore single-cell multi-omics, scATAC-seq and spatial transcriptomics data w…

  R

  •

  GNU General Public License v3.0

  •12•0•0•0•Updated Jan 16, 2026Jan 16, 2026

• web-components

  Public
  A collection of Web Components for interacting with and visualizing biological data.

  typescriptbiologyweb-components+ 2litlegumes

  TypeScript

  •

  Apache License 2.0

  •3•5•9•16•Updated Jan 16, 2026Jan 16, 2026

• divbrowse

  Public
  A web application for interactive visualization and exploratory data analysis of variant call matrices

  Svelte

  •

  MIT License

  •3•0•0•0•Updated Jan 9, 2026Jan 9, 2026

• ZZBrowse

  Public
  R

  •

  Other

  •6•1•18•0•Updated Dec 19, 2025Dec 19, 2025

• Optimized_AHRD

  Public
  An optimized Nextflow pipeline to run AHRD

  Nextflow

  •

  Apache License 2.0

  •0•0•2•0•Updated Dec 8, 2025Dec 8, 2025

• gcv-docker-compose

  Public
  Resources for running the Genome Context Viewer with Docker Compose

  Shell

  •

  Apache License 2.0

  •1•2•6•0•Updated Nov 21, 2025Nov 21, 2025

• jekyll-theme-legumeinfo

  Public
  A Jekyll theme for the Legume Information System and related biodata websites

  jekylljekyll-themebiology+ 3uikitweb-componentslegumes

  JavaScript

  •

  Apache License 2.0

  •1•1•7•1•Updated Oct 1, 2025Oct 1, 2025

• jekyll-starter-legumeinfo

  Public
  A Jekyll site that demonstrates how to use the legumeinfo Jekyll theme

  jekylljekyll-themebiology+ 3uikitweb-componentslegumes

  HTML

  •

  Apache License 2.0

  •1•2•1•0•Updated Oct 1, 2025Oct 1, 2025

• legumeinfo.org

  Public
  general site issues (or a place to log issues if you just want to put them somewhere and triage which repository they properly belong to later)

  HTML

  •0•0•14•0•Updated Oct 1, 2025Oct 1, 2025

• jekyll-legumeinfo

  Public
  legumeinfo.org built with Jekyll and served on GitHub Pages

  HTML

  •

  Apache License 2.0

  •1•4•6•0•Updated Oct 1, 2025Oct 1, 2025

• website-ui-specs

  Public
  User interface specification of components built for the Jekyll sites.

  Apache License 2.0

  •0•0•4•0•Updated Sep 29, 2025Sep 29, 2025

• Funnotate

  Public
  Functional annotation of FASTA sequences

  JavaScript

  •

  Apache License 2.0

  •0•2•5•0•Updated Aug 5, 2025Aug 5, 2025

• sven-documentation

  Public
  0•0•0•0•Updated Aug 5, 2025Aug 5, 2025

• lis-bio-sources

  Public
  The InterMine loaders for importing data from the LIS datastore.

  Java

  •

  GNU Lesser General Public License v3.0

  •0•0•0•0•Updated Jul 22, 2025Jul 22, 2025

• sequenceserver

  Public
  Intuitive local web frontend for the BLAST bioinformatics tool

  JavaScript

  •

  GNU Affero General Public License v3.0

  •119•0•2•0•Updated Jul 21, 2025Jul 21, 2025

• gene-fam-assign

  Public
  Use hmmsearch to assign proteomes to LIS gene families

  Shell

  •

  Apache License 2.0

  •0•0•0•0•Updated Jun 3, 2025Jun 3, 2025

• taxon-symbology

  Public
  A TypeScript library for consistent coloring of visualizations by genus & species.

  TypeScript

  •

  Apache License 2.0

  •0•1•0•11•Updated May 6, 2025May 6, 2025

• gcv

  Public
  Federating genomes with love (and synteny derived from functional annotations)

  dockerangularbioinformatics+ 7microservicescomparative-genomicsfederationsyntenygrpc-webpangenomicsfunctional-annotations

  TypeScript

  •

  Apache License 2.0

  •10•44•64•24•Updated May 2, 2025May 2, 2025

• genefam-assignment

  Public
  Apache License 2.0

  •0•0•0•0•Updated Apr 24, 2025Apr 24, 2025

• lis_gfa

  Public
  Gene family assignment protocol for LIS

  Perl

  •

  Apache License 2.0

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