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Breeding Insight Genomics population Analyses

Pedigree Validation and Breed/Line Composition Estimation for Diploid and Polyploid Species

BIGpopA is an R package developed by Breeding Insight that provides tools for pedigree quality control and genomic breed/line composition estimation in diploid and polyploid breeding populations. It is designed to help researchers and breeders identify pedigree errors, assign parentage from SNP genotype data, and estimate genome-wide breed or line composition.

Installation

To install the development version of BIGpopA, install from GitHub using remotes:

install.packages("remotes")
remotes::install_github("Breeding-Insight/BIGpopA", dependencies = TRUE)
library(BIGpopA)

Note: BIGpopA is currently in development. Please report any bugs or issues on the GitHub Issues page.

Funding

BIGpopA development is supported by Breeding Insight, a USDA-funded initiative based at the University of Florida - IFAS.

Citation

If you use BIGpopA in your research, please cite as:

Chinchilla-Vargas, Josue, and Breeding Insight Team. 2025. “BIGpopA: Pedigree Validation and Breed/Line Composition Estimation for Diploid and Polyploid Species.” https://github.com/Breeding-Insight/BIGpopA.

These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.