├── .Rbuildignore ├── .github ├── .gitignore └── workflows │ └── R-CMD-check.yaml ├── .gitignore ├── .travis.yml ├── DESCRIPTION ├── LICENSE ├── NAMESPACE ├── NEWS.md ├── R ├── data.R ├── hnn.R ├── local.R ├── moransi.R ├── sca.R ├── stats.R └── zzz.R ├── README.md ├── _pkgdown.yml ├── appveyor.yml ├── codecov.yml ├── cran-comments.md ├── data └── available.data.rda ├── docs ├── 404.html ├── LICENSE-text.html ├── apple-touch-icon-120x120.png ├── apple-touch-icon-152x152.png ├── apple-touch-icon-180x180.png ├── apple-touch-icon-60x60.png ├── apple-touch-icon-76x76.png ├── apple-touch-icon.png ├── articles │ ├── SCA_vs_PCA.html │ ├── SCA_vs_PCA_files │ │ └── figure-html │ │ │ ├── evaluation-1.png │ │ │ ├── load-1.png │ │ │ ├── sca-1.png │ │ │ └── spatial-1.png │ ├── get_started.html │ ├── get_started_files │ │ └── figure-html │ │ │ ├── cluster-4-1.png │ │ │ ├── clustering-1.png │ │ │ ├── compare-1.png │ │ │ ├── de-genes-1.png │ │ │ ├── load-1.png │ │ │ ├── pca-1.png │ │ │ ├── sca-1.png │ │ │ ├── unnamed-chunk-2-1.png │ │ │ └── unnamed-chunk-3-1.png │ ├── hnn_image.png │ ├── img │ │ └── hnn_image.png │ └── index.html ├── authors.html ├── bootstrap-toc.css ├── bootstrap-toc.js ├── code-color-scheme-dark.css ├── code-color-scheme-light.css ├── darkswitch.js ├── docsearch.css ├── docsearch.js ├── favicon-16x16.png ├── favicon-32x32.png ├── favicon.ico ├── index.html ├── link.svg ├── logo.png ├── news │ └── index.html ├── pkgdown.css ├── pkgdown.js ├── pkgdown.yml ├── preferably.css ├── reference │ ├── BivariateMoransI.html │ ├── BivariateMoransIStats.html │ ├── FitMoransI.html │ ├── HnnImpute.html │ ├── HnnNeighbor.html │ ├── HnnNeighborIndex.html │ ├── HnnWeight.html │ ├── IrregularData.html │ ├── IrregularMoransI.html │ ├── LeeL.html │ ├── LoadData.html │ ├── LocalGi.html │ ├── LocalMoransI.html │ ├── LocalMoransIStats.html │ ├── OLSMoransI.html │ ├── PermutationCorr.html │ ├── PermutationGi.html │ ├── PermutationLag.html │ ├── PermutationLocalI.html │ ├── PermutationMoransI.html │ ├── PermutationPval.html │ ├── Rplot001.png │ ├── SCA.html │ ├── SpatialXCorr.html │ ├── UnivariateMoransI.html │ ├── VisiumHnn.html │ ├── WartenbergM.html │ ├── ZPvalue.html │ ├── available.data.html │ ├── figures │ │ └── logo.png │ ├── index.html │ ├── rspca-package.html │ └── spots-package.html └── sitemap.xml ├── inst └── WORDLIST ├── man ├── BivariateMoransI.Rd ├── BivariateMoransIStats.Rd ├── FitMoransI.Rd ├── HnnImpute.Rd ├── HnnNeighbor.Rd ├── HnnNeighborIndex.Rd ├── HnnWeight.Rd ├── IrregularData.Rd ├── IrregularMoransI.Rd ├── LeeL.Rd ├── LoadData.Rd ├── LocalGi.Rd ├── LocalMoransI.Rd ├── LocalMoransIStats.Rd ├── OLSMoransI.Rd ├── PermutationCorr.Rd ├── PermutationGi.Rd ├── PermutationLag.Rd ├── PermutationLocalI.Rd ├── PermutationMoransI.Rd ├── PermutationPval.Rd ├── SCA.Rd ├── SpatialXCorr.Rd ├── UnivariateMoransI.Rd ├── VisiumHnn.Rd ├── WartenbergM.Rd ├── ZPvalue.Rd ├── available.data.Rd ├── figures │ └── logo.png └── spots-package.Rd ├── pkgdown └── favicon │ ├── apple-touch-icon-120x120.png │ ├── apple-touch-icon-152x152.png │ ├── apple-touch-icon-180x180.png │ ├── apple-touch-icon-60x60.png │ ├── apple-touch-icon-76x76.png │ ├── apple-touch-icon.png │ ├── favicon-16x16.png │ ├── favicon-32x32.png │ └── favicon.ico ├── spots.Rproj ├── tests ├── testthat.R └── testthat │ ├── test-local.R │ ├── test-moransi.R │ └── test-stats.R └── vignettes ├── .gitignore ├── SCA_vs_PCA.Rmd ├── get_started.Rmd └── img └── hnn_image.png /.Rbuildignore: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/stevexniu/spots/HEAD/.Rbuildignore -------------------------------------------------------------------------------- /.github/.gitignore: -------------------------------------------------------------------------------- 1 | *.html 2 | -------------------------------------------------------------------------------- /.github/workflows/R-CMD-check.yaml: 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