{ "_id": "6ad74c79d556c3a3418a7405", "Type": "Package", "Package": "slideimp", "Title": "Numeric Matrices K-NN and PCA Imputation", "Version": "1.2.0", "Authors@R": "c(\nperson(\"Hung\", \"Pham\", , \"amser.hoanghung@gmail.com\", role = c(\"aut\", \"cre\", \"cph\"),\ncomment = c(ORCID = \"0000-0002-8271-9355\")),\nperson(\"Posit Software, PBC\", role = \"cph\",\ncomment = \"Copyright holder of code adapted from the 'carrier' package, MIT licensed\")\n)", "Description": "Fast k-nearest neighbors (K-NN) and principal component\nanalysis (PCA) imputation algorithms for missing values in\nepigenetic data or other high-dimensional numeric matrices. For\nPCA, a locally optimal block preconditioned conjugate gradient\n(LOBPCG) eigensolver with warm starts of both the eigenblock\nand search direction is also supported. Two complementary\nimputation strategies are available. Group-wise imputation\n(e.g., by chromosome) is recommended for Illumina DNA\nmethylation microarrays (e.g., 450K, EPIC) and other matrices\nwith groupable columns. A sliding window approach for K-NN or\nPCA imputation is recommended only for whole-genome methylation\ndata such as whole-genome bisulfite sequencing (WGBS) or\nEnzymatic Methyl-seq (EM-seq). The package also supports\nhyperparameter tuning via repeated cross-validation. The K-NN\nalgorithm is described in: Hastie, T., Tibshirani, R.,\nSherlock, G., Eisen, M., Brown, P. and Botstein, D. (1999)\n\"Imputing Missing Data for Gene Expression Arrays\". The PCA\nimputation is an optimized reimplementation of the imputePCA()\nfunction from the 'missMDA' package described in: Josse, J. and\nHusson, F. (2016) \"missMDA: A\nPackage for Handling Missing Values in Multivariate Data\nAnalysis\".", "License": "GPL (>= 2)", "URL": "https://github.com/hhp94/slideimp,\nhttps://hhp94.github.io/slideimp/", "BugReports": "https://github.com/hhp94/slideimp/issues", "VignetteBuilder": "knitr", "Config/Needs/website": "rmarkdown", "Config/roxygen2/version": "8.0.0", "Config/testthat/edition": "3", "Encoding": "UTF-8", "Language": "en-US", "NeedsCompilation": "yes", "Packaged": { "Date": "2026-10-20 11:06:10 UTC", "User": "root" }, "Author": "Hung Pham [aut, cre, cph] (ORCID:\n), Posit Software, PBC\n[cph] (Copyright holder of code adapted from the 'carrier'\npackage, MIT licensed)", "Maintainer": "Hung Pham ", "Repository": "https://cran.r-universe.dev", "Date/Publication": "2026-06-16 11:39:24 UTC", "RemoteUrl": "https://github.com/cran/slideimp", "RemoteRef": "HEAD", "RemoteSha": "dfe3063fde4e7e8b0415aa23c1d99256cc77d6d1", "_user": "cran", "_type": "src", "_file": "slideimp_1.2.0.tar.gz", 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