Repositories list

• bi-api

  Public
  Java

  •

  Apache License 2.0

  •11 fork•88 stars•00 issues•1616 pull requests•Updated May 20, 2026May 20, 2026

• Qploidy2

  Public
  Estimates individuals ploidy, aneuploidy and large-scale CNV based on genetic markers

  R

  •

  GNU Affero General Public License v3.0

  •22 forks•00 stars•00 issues•00 pull requests•Updated May 20, 2026May 20, 2026

• GenoBrew

  Public
  A user-friendly Shiny app for evaluating marker panel efficiency and visualizing CNV profiles

  R

  •

  Apache License 2.0

  •00 forks•00 stars•00 issues•00 pull requests•Updated May 20, 2026May 20, 2026

• familia

  Public
  ShinyApp for ancestry analysis

  R

  •

  Apache License 2.0

  •00 forks•00 stars•00 issues•11 pull request•Updated May 20, 2026May 20, 2026

• bi-web

  Public
  TypeScript

  •

  Apache License 2.0

  •11 fork•77 stars•00 issues•2222 pull requests•Updated May 20, 2026May 20, 2026

• brapi

  Public
  A java project with modules to interact with BrAPI data.

  Java

  •

  Apache License 2.0

  •11 fork•44 stars•22 issues•66 pull requests•Updated May 20, 2026May 20, 2026

• brapi-Java-ProdServer

  Public
  BrAPI Java Production Server

  Java

  •

  MIT License

  •99 forks•00 stars•00 issues•00 pull requests•Updated May 20, 2026May 20, 2026

• BIGr

  Public
  This R package contains the functions developed within Breeding Insight to analyze diploid and polyploid breeding and genetic data

  R

  •

  Apache License 2.0

  •33 forks•44 stars•11 issue•11 pull request•Updated May 20, 2026May 20, 2026

• HapAllelism_utils

  Public
  Determine if a sequence/microhaplotype is allelic or paralogous.

  Python

  •

  MIT License

  •00 forks•00 stars•00 issues•00 pull requests•Updated May 19, 2026May 19, 2026

• BIGapp

  Public
  The BIG app is a user-friendly R Shiny app to analyze genomic data without needing to use command-line tools and works across different species ploidy.

  dartbioinformaticsgenomics+ 2

  dartbioinformaticsgenomicsbreedingshiny-apps

  R

  •

  Apache License 2.0

  •66 forks•88 stars•11 issue•11 pull request•Updated May 19, 2026May 19, 2026

• bi-docker-stack

  Public
  Shell

  •00 forks•33 stars•00 issues•00 pull requests•Updated May 14, 2026May 14, 2026

• HapApp-online

  Public
  A Python Dash front-end to use the BI Genomics pipelines for processing raw MADC files and obtaining new unique microhaplotypes

  Python

  •00 forks•00 stars•00 issues•00 pull requests•Updated May 12, 2026May 12, 2026

• HapApp

  Public
  A Python Dash front-end to use the BI Genomics pipelines for processing raw MADC files and obtaining new unique microhaplotypes

  Python

  •00 forks•00 stars•00 issues•00 pull requests•Updated May 12, 2026May 12, 2026

• AlloMate

  Public
  AlloMate is a shiny app that simplifies mate allocation decisions for breeders.

  JavaScript

  •22 forks•00 stars•00 issues•00 pull requests•Updated May 11, 2026May 11, 2026

• Breedverse

  Public
  Collection of BI R packages with Shiny Interface

  R

  •

  Apache License 2.0

  •00 forks•11 star•11 issue•00 pull requests•Updated May 1, 2026May 1, 2026

• BI_Genotype_IDs_Generator

  Public
  ShinyApp to generate sample tracking files needed for BI-DArT workflow

  R

  •00 forks•00 stars•00 issues•00 pull requests•Updated Apr 30, 2026Apr 30, 2026

• BIGapp-PanelHub

  Public
  Metadata store of marker panels for BIGapp downstream workflows

  00 forks•00 stars•00 issues•11 pull request•Updated Apr 20, 2026Apr 20, 2026

• HapApp_utils

  Public
  Scripts and workflow for building microhaplotype database from targeted genotyping platforms.

  Python

  •

  MIT License

  •00 forks•00 stars•00 issues•00 pull requests•Updated Apr 20, 2026Apr 20, 2026

• dartag_alleles

  Public
  Building allele database from DArTag missing allele discovery count files

  Python

  •00 forks•00 stars•00 issues•00 pull requests•Updated Apr 9, 2026Apr 9, 2026

• nemaquant

  Public
  JavaScript

  •

  Apache License 2.0

  •00 forks•00 stars•00 issues•00 pull requests•Updated Mar 25, 2026Mar 25, 2026

• gigwa-pom

  Public
  00 forks•00 stars•00 issues•00 pull requests•Updated Feb 18, 2026Feb 18, 2026

• Gigwa2

  Public
  JavaScript

  •

  GNU Affero General Public License v3.0

  •88 forks•00 stars•00 issues•11 pull request•Updated Feb 18, 2026Feb 18, 2026

• Field-Book

  Public
  Breeding Insight fork of FB for changes required for integration

  Kotlin

  •

  GNU General Public License v2.0

  •6969 forks•00 stars•00 issues•00 pull requests•Updated Feb 12, 2026Feb 12, 2026

• sorghum_validate_panel

  Public
  This repository contains a complete computational workflow for comparing genomic selection (GS) performance between whole-genome sequencing (WGS) and AgriPlex g…

  R

  •00 forks•00 stars•00 issues•00 pull requests•Updated Feb 6, 2026Feb 6, 2026

• Alfalfa_genomic_prediction_paper

  Public
  R

  •11 fork•00 stars•00 issues•00 pull requests•Updated Feb 2, 2026Feb 2, 2026

• Hemp-Node-Detection

  Public
  Python

  •11 fork•00 stars•00 issues•00 pull requests•Updated Jan 20, 2026Jan 20, 2026

• Alfalfa_ARR_QTL

  Public
  Scripts for Aphanomyces root rot QTL mapping and candidate gene prioritation.

  R

  •00 forks•00 stars•00 issues•00 pull requests•Updated Jan 12, 2026Jan 12, 2026

• RoeBox

  Public
  YOLOV8 (Roboflow 3.0) pipeline for counting and classifying trout eggs.

  Python

  •00 forks•00 stars•00 issues•00 pull requests•Updated Oct 6, 2025Oct 6, 2025

• Cranberry_DArTag_Panel_paper

  Public
  R

  •00 forks•00 stars•00 issues•00 pull requests•Updated Sep 17, 2025Sep 17, 2025

• taf

  Public
  Test Automation Framework

  JavaScript

  •

  Apache License 2.0

  •00 forks•00 stars•00 issues•44 pull requests•Updated Sep 10, 2025Sep 10, 2025