{
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  "Package": "ProbBreed",
  "Title": "Probability Theory for Selecting Candidates in Plant Breeding",
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  "Authors@R": "c(person(\"Saulo\", \"Chaves\", role = c(\"aut\", \"cre\"),\nemail = \"saulochaves@usp.br\",\ncomment = c(ORCID = \"0000-0002-0694-1798\")),\nperson(\"Kaio\", \"Dias\", role = c(\"aut\", \"cph\"),\nemail = \"kaio.o.dias@ufv.br\",\ncomment = c(ORCID = \"0000-0002-9171-1021\")),\nperson(\"Matheus\", \"Krause\", role = \"aut\",\nemail = \"mdkrause@iastate.edu\",\ncomment = c(ORCID = \"0000-0003-2411-9287\")))",
  "Description": "Use probability theory under the Bayesian framework for\ncalculating the risk of selecting candidates in a\nmulti-environment context. Contained are functions used to fit\na Bayesian multi-environment model (based on the available\npresets), extract posterior values and maximum posterior\nvalues, compute the variance components, check the model’s\nconvergence, and calculate the probabilities. For both across\nand within-environments scopes, the package computes the\nprobability of superior performance and the pairwise\nprobability of superior performance. Furthermore, the\nprobability of superior stability and the pairwise probability\nof superior stability across environments is estimated. A joint\nprobability of superior performance and stability is also\nprovided.",
  "URL": "https://github.com/saulo-chaves/ProbBreed,\nhttps://saulo-chaves.github.io/ProbBreed_site/,\nhttps://saulo-chaves.github.io/ProbBreed/",
  "BugReports": "https://github.com/saulo-chaves/ProbBreed/issues",
  "License": "AGPL (>= 3)",
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  "Date/Publication": "2025-12-15 23:40:24 UTC",
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