Package: SNPkit
Title: S4 Tools for Reading and Organizing Genetic Data
Version: 0.1.0
Authors@R: 
    c(person(given = "Vinícius",
             family = "Junqueira",
             role = c("aut", "cre"),
             email = "junqueiravinicius@hotmail.com"),
      person(given = "Roberto",
             family = "Higa",
             role = "aut",
             email = "roberto.higa@embrapa.br"),
      person(given = "Fernando Flores",
             family = "Cardoso",
             role = "aut",
             email = "fernando.cardoso@embrapa.br"),
      person(given = "Marcos Jun Iti",
             family = "Yokoo",
             role = "aut",
             email = "marcos.yokoo@embrapa.br"))
Description: Provides an integrated suite of tools for handling single
    nucleotide polymorphism (SNP) genotype data in large-scale genetic
    studies. Supports importing and merging genotype files, performing
    quality control on SNP markers and samples, and preparing data for
    downstream analyses using popular software such as 'FImpute' and
    'PLINK'. Offers S4 classes and methods to efficiently encapsulate SNP
    data, along with utilities for generating genotype summary statistics
    and visualization. Additional functionalities include anticlustering
    approaches for batch effect control, automated script generation for
    external software, and streamlined workflows for large datasets
    commonly encountered in animal and plant breeding programs. Designed
    to facilitate reproducible and scalable SNP data analyses in
    quantitative and statistical genetics.
Depends: R (>= 4.1.0)
Imports: methods, ggplot2, dplyr, data.table, Rcpp, stringi, anticlust,
        grDevices, graphics, stats, utils, MASS, snpStats, magrittr,
        reshape2
LinkingTo: Rcpp
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
Encoding: UTF-8
License: GPL-3
URL: https://viniciusjunqueira.github.io/SNPkit/,
        https://github.com/viniciusjunqueira/SNPkit
BugReports: https://github.com/viniciusjunqueira/SNPkit/issues
RoxygenNote: 7.3.3
NeedsCompilation: yes
Packaged: 2026-06-22 15:01:21 UTC; viniciusjunqueira
Author: Vinícius Junqueira [aut, cre],
  Roberto Higa [aut],
  Fernando Flores Cardoso [aut],
  Marcos Jun Iti Yokoo [aut]
Maintainer: Vinícius Junqueira <junqueiravinicius@hotmail.com>
Repository: CRAN
Date/Publication: 2026-06-26 09:40:08 UTC
Built: R 4.7.0; x86_64-w64-mingw32; 2026-07-03 03:50:58 UTC; windows
Archs: x64
