{ "_id": "6abb680099f7aa8c6aa439dd", "Package": "BreedingExperiment", "Title": "Container and Relationship Matrices for Breeding and\nQuantitative Genomics", "Version": "0.99.4", "Authors@R": "person(\"Muhammad\", \"Farooqi\", email = \"mqfarooqi@gmail.com\",\nrole = c(\"aut\", \"cre\"),\ncomment = c(ORCID = \"0000-0003-4918-9791\"))", "Description": "Provides the BreedingExperiment class, a container that\nkeeps marker genotypes, phenotypes, pedigree and marker\ncoordinates together in one object, extending\nRangedSummarizedExperiment so that markers are addressable as\ngenomic ranges. Relationship matrices central to quantitative\ngenetics are computed as methods on the container: the pedigree\nnumerator relationship matrix of Henderson (1976)\n, the genomic relationship matrix of\nVanRaden (2008) , the dominance\nrelationship matrix of Vitezica, Varona and Legarra (2013)\n, and the single-step matrix\ncombining pedigree and genomic information of Legarra, Aguilar\nand Misztal (2009) and Christensen\nand Lund (2010) , which allows\ngenotyped and ungenotyped individuals to be analysed together\nas in Aguilar and others (2010) .\nMarker quality control, imputation, inbreeding coefficients and\nallele frequency summaries are included.", "License": "MIT + file LICENSE", "Encoding": "UTF-8", "Language": "en-GB", "VignetteBuilder": "knitr", "biocViews": "Software, Genetics, SNP, GenomicVariation,\nDataRepresentation, Infrastructure, Regression, QualityControl", "URL": "https://github.com/mqfarooqi1/BreedingExperiment,\nhttps://mqfarooqi1.github.io/BreedingExperiment/", 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