Apps & R packages

Be-Breeder: is a free, web-based R/Shiny application designed for teaching and learning quantitative genetics concepts in plant breeding. It facilitates phenotypic and molecular data analysis, including genomic selection, GWAS, and breeding simulations without requiring advanced programming skills.
https://doi.org/10.2135/cropsci2018.10.0621le

SoilApp: is an advanced model of an open-source platform to support teaching and learning activities in soil analyses and fertilizer recommendations.
https://doi.org/10.1590/1678-992X-2019-0113

SST Camcore: Species Selection Tool is an easy-to-use web application that helps forest managers, breeders, and researchers choose the right tree species for the right place, both now and in the future.

envRtype: Provide tools for collecting environmental data from GIS-based platforms,enabling environmental characterization studies, providing environmental relatedness kinships and kernels for genomic prediction of reaction norms
https://doi.org/10.1093/g3journal/jkab040

SoilType: An R package to interplay soil characterization in quantitative genetics and precision agriculture.
https://doi.org/10.1002/agj2.21383

snpReady: A tool to assist breeders in genomic analysis
https://link.springer.com/article/10.1007/s11032-018-0844-8

BGGE: An R Package for Genomic-Enabled Prediction Incorporating Genotype × Environment Interaction Models
https://doi.org/10.1534/g3.118.200435