R package for breeding program simulations

An R package to use the Breeding API (BrAPI) for accessing plant breeding data.

A serious game to teach plant selective breeding.

This repository serves as a valuable resource for individuals engaged in data exploration, statistical analysis, and research within the domains of plant breeding, genetics, statistics, and genomics. The purpose of this repository is to share a collection of R codes that can be utilized by others for their own data analysis projects

Computes the Genomic Prediction for the target population across multi environments with only genotypic Data using the options for model selection.

This repository contains the files from my master thesis project required to conduct a whole-genome analysis of haploblocks in wheat based on pairwise comparisons between assemblies. This is based on a previous method (https://doi.org/10.1038/s42003-020-01413-2), but focuses on the the quality of the pairwise comparisons to call haplotypes.

An R Shiny web app for improving the efficiency of making paired crosses in plant breeding.

Simulation of tea breeding programmes using genomic selection

Phasing, haplotype reconstruction and crossover detection with single-nucleotide polymorphism data from multiparental populations.

R 📦 providing classes and functions to simulate breeding schemes.

This repository is a compilation of all codes for the phenotypic diversity of a worldwide sesame germplasm from the Korean genebank.

Forward simulation of breeding strategies

project runned during the JRL about farmer seeds

Sipe H, IN Keren, and SJ Converse. 2023. Integrating community science and agency-collected monitoring data to expand monitoring capacity at large spatial scales. Ecology and Evolution.