├── .Rbuildignore ├── .github ├── .gitignore └── workflows │ └── check-release.yaml ├── .gitignore ├── CRAN-SUBMISSION ├── DESCRIPTION ├── LICENSE ├── LICENSE.md ├── NAMESPACE ├── NEWS.md ├── R ├── confusion_matrix.R ├── ibd.R ├── ped.R ├── read.R ├── skater-package.R ├── utils-pipe.R └── utils.R ├── README.Rmd ├── README.md ├── _pkgdown.yml ├── cran-comments.md ├── data-raw ├── .gitignore ├── generate_sysdata.R └── write-sampleids-1000g-unrelated.R ├── docs ├── 404.html ├── LICENSE-text.html ├── LICENSE.html ├── articles │ ├── basic_usage.html │ ├── basic_usage_files │ │ ├── figure-html │ │ │ └── plotped-1.png │ │ └── header-attrs-2.9 │ │ │ └── header-attrs.js │ └── index.html ├── authors.html ├── bootstrap-toc.css ├── bootstrap-toc.js ├── docsearch.css ├── docsearch.js ├── index.html ├── link.svg ├── news │ └── index.html ├── pkgdown.css ├── pkgdown.js ├── pkgdown.yml ├── reference │ ├── Rplot001.png │ ├── arrange_ids.html │ ├── calc_accuracy.html │ ├── calc_stats.html │ ├── confusion_matrix.html │ ├── dibble.html │ ├── fam2ped.html │ ├── figures │ │ ├── README-plotped-1.png │ │ ├── lifecycle-archived.svg │ │ ├── lifecycle-defunct.svg │ │ ├── lifecycle-deprecated.svg │ │ ├── lifecycle-experimental.svg │ │ ├── lifecycle-maturing.svg │ │ ├── lifecycle-questioning.svg │ │ ├── lifecycle-stable.svg │ │ └── lifecycle-superseded.svg │ ├── ibd2kin.html │ ├── index.html │ ├── interpolate.html │ ├── kin2cm.html │ ├── kin2degree.html │ ├── ped2kinpair.html │ ├── pipe.html │ ├── plot_pedigree.html │ ├── read_akt.html │ ├── read_fam.html │ ├── read_ibd.html │ ├── read_ibis.html │ ├── read_map.html │ ├── read_plink2_king.html │ └── skater-package.html └── sitemap.xml ├── inst └── extdata │ ├── 3gens.akt │ ├── 3gens.fam │ ├── 3gens.ibis.coef │ ├── 4gens.akt │ ├── 4gens.fam │ ├── GBR.sim.fam │ ├── GBR.sim.ibd.gz │ ├── GBR.sim.seg.gz │ ├── plink2-king-table.tsv │ └── sexspec-avg-min.plink.map ├── man ├── arrange_ids.Rd ├── calc_accuracy.Rd ├── calc_stats.Rd ├── confusion_matrix.Rd ├── dibble.Rd ├── fam2ped.Rd ├── ibd2kin.Rd ├── interpolate.Rd ├── kin2cm.Rd ├── kin2degree.Rd ├── ped2kinpair.Rd ├── pipe.Rd ├── plot_pedigree.Rd ├── read_akt.Rd ├── read_fam.Rd ├── read_ibd.Rd ├── read_ibis.Rd ├── read_map.Rd ├── read_plink2_king.Rd └── skater-package.Rd ├── paper ├── F1000header.png ├── bibliography.bib ├── f1000_styles.sty ├── paper.Rmd ├── paper.log ├── paper.pdf ├── paper.tex └── paper_files │ └── figure-latex │ └── plotped-1.pdf ├── skater.Rproj ├── tests ├── testthat.R └── testthat │ └── test-skater.R └── vignettes ├── .gitignore └── basic_usage.Rmd /.Rbuildignore: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/signaturescience/skater/HEAD/.Rbuildignore -------------------------------------------------------------------------------- /.github/.gitignore: -------------------------------------------------------------------------------- 1 | *.html 2 | 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