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# CITATION.cff file created with {cffr} R package
# See also: https://docs.ropensci.org/cffr/
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cff-version: 1.2.0
message: 'To cite package "EnvRtype" in publications use:'
type: software
license: GPL-3.0-only
title: 'EnvRtype: Envirotyping for Quantitative Genetics and Plant Breeding'
version: 0.1.3
doi: 10.1093/g3journal/jkab040
identifiers:
- type: doi
  value: 10.32614/CRAN.package.EnvRtype
abstract: An enviromics toolkit for genotype-by-environment analysis and envirotype-informed
  genomic prediction. Collects worldwide daily and hourly weather from 'NASA POWER',
  soil profiles from 'SoilGrids', elevation and bioclimatic layers from 'WorldClim',
  agro-ecological zones from 'FAO GAEZ', and downscaled 'CMIP6' climate scenarios,
  with checkpointed retrieval that can resume after an interrupted run. Derives agro-meteorological
  parameters (solar radiation, evapotranspiration, thermal time, atmospheric demand),
  runs a FAO-56 single crop coefficient soil water balance, and maps daily weather
  onto crop developmental stages. Builds environmental covariable matrices, envirotype
  typologies and frequency matrices, mega-environment clusters, historical risk profiles
  and target population of environments weights. Reduces interval-resolved envirotypes
  by principal component analysis, delineates soil zones with Gaussian mixture models,
  and constructs linear, Gaussian and arc-cosine environmental relatedness kernels.
  Fits Bayesian reaction-norm kernel models and predicts trained genotypes at untested
  locations and planting dates, with coverage diagnostics, spatial mapping and planting-window
  optimisation. Simulation functions generate multi-environment trials and enviromes
  with known architecture for power analysis. Methods are described in Costa-Neto,
  Galli, Carvalho, Crossa and Fritsche-Neto (2021) <https://doi.org/10.1093/g3journal/jkab040>,
  and build on the Bayesian genotype-by-environment kernel sampler of Granato, Cuevas,
  Luna-Vazquez, Crossa, Montesinos-Lopez, Burgueno and Fritsche-Neto (2018) <https://doi.org/10.1534/g3.118.200435>.
authors:
- family-names: Costa-Neto
  given-names: Germano
  email: germano.cneto@gmail.com
- family-names: Pontes
  given-names: Fernanda
  email: ferpoontes@gmail.com
preferred-citation:
  type: article
  title: 'EnvRtype: a software to interplay enviromics and quantitative genomics in
    agriculture'
  authors:
  - family-names: Costa-Neto
    given-names: Germano
    email: germano.cneto@gmail.com
  - family-names: Galli
    given-names: Giovanni
  - family-names: Carvalho
    given-names: Humberto Fanelli
  - family-names: Crossa
    given-names: Jose
  - family-names: Fritsche-Neto
    given-names: Roberto
  journal: G3 Genes|Genomes|Genetics
  year: '2021'
  volume: '11'
  issue: '4'
  doi: 10.1093/g3journal/jkab040
  url: https://academic.oup.com/g3journal/article/11/4/jkab040/6129777
  start: jkab040
repository: https://gcostaneto.r-universe.dev
repository-code: https://github.com/gcostaneto/EnvRtype
commit: add5c59616e13876b9250723ffa435a322ac2fac
url: https://gcostaneto.github.io/EnvRtype/
date-released: '2026-10-22'
contact:
- family-names: Costa-Neto
  given-names: Germano
  email: germano.cneto@gmail.com
references:
- type: manual
  title: 'EnvRtype: Envirotyping for Quantitative Genetics and Plant Breeding'
  authors:
  - family-names: Costa-Neto
    given-names: Germano
  - family-names: Pontes
    given-names: Fernanda
  year: '2025'
  notes: R package version 0.1.3
  url: https://gcostaneto.github.io/EnvRtype/