ArticleBioinformatics (Oxford, England)2023
AGHmatrix: genetic relationship matrices in R.
Article in Bioinformatics (Oxford, England), 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 64 papers.
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Who cites it
64 citing papers in PubMed, 80 citations in OpenAlex.
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- Systems genetics analysis reveals immune mediators of coronavirus disease severity in mice.Genetics · 2026Article
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- Integrating genomic and phenomic data improves prediction of key traits in potato breeding.Horticulture research · 2026Article
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- Selection shapes the evolution of genome size in a globally invasive plant.The New phytologist · 2026Article
- Non-linear kernel methods for genomic prediction of soybean yield and quality in multi-environment trials.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2026Article
- Dissecting genetic variance structure and evaluating genomic prediction models for single-cross hybrids derived from Stiff Stalk and Non-Stiff Stalk maize heterotic groups.G3 (Bethesda, Md.) · 2026Article
- Using deep learning models as a genetic architecture for the simulation of breeding schemes.G3 (Bethesda, Md.) · 2026Article
- Unlocking almond breeding for nutritional composition with hyperspectral imaging.Plant phenomics (Washington, D.C.) · 2026Article
- Genetic Parameters and Sex-Specific Architecture of Observed and Latent Fertility Phenotypes in a Closed Breeding Nucleus of an Arctic Salmonid.Journal of animal breeding and genetics = Zeitschrift fur Tierzuchtung und Zuchtungsbiologie · 2026Article
- Genomic prediction in quinoa across contrasting environments using statistical and machine learning models.The plant genome · 2026Article
- Integrating genomic selection into potato breeding: A comparison of genotyping platforms and cross-environmental predictions.The plant genome · 2026Article
- Improving hybrid breeding efficiency in winter oilseed rape under sparse multi-environment testing.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2026Article
- Prioritization of deleterious mutations informs genomic prediction and increases the rate of gain in common bean (Phaseolus vulgaris L.), a simulation study.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2026Article
- Insights into Genetic Diversity Within the Auliekol Cattle Breed Using SNP Genotyping.Animals : an open access journal from MDPI · 2026Article
- A non-linear game for two: genetic parameters and prediction of fertilization success using Bayesian and machine learning frameworks.Genetics, selection, evolution : GSE · 2026Article
- Phenomics-assisted sparse testing for potato breeding.Scientific reports · 2026Article
4 more citing papers are in PubMed but not listed here.
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Authors and funding
4 authors at 3 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
motivationThe resemble between relatives computed from pedigree and genomic data is an important resource for geneticists and ecologists, who are interested in understanding how genes influence phenotypic variation, fitness adaptation, and population dynamics.
resultsThe AGHmatrix software is an R package focused on the construction of pedigree (A matrix) and/or molecular markers (G matrix), with the possibility of building a combined matrix of pedigree corrected by molecular markers (H matrix). Designed to estimate the relationships for any ploidy level, the software also includes auxiliary functions related to filtering molecular markers, and checks pedigree errors in large data sets. After computing the relationship matrices, results from the AGHmatrix can be used in different contexts, including on prediction of (genomic) estimated breeding values and genome-wide association studies. AVAILABILITY AND IMPLEMENTATION: AGHmatrix v2.1.0 is available under GPL-3 license in CRAN at https://cran.r-project.org/web/packages/AGHmatrix/index.html and also in GitHub at https://github.com/rramadeu/AGHmatrix. It has a comprehensive tutorial, and it follows with real data examples.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.