{ "_id": "6a1031b9acfb0bcc41c971c3", "Package": "rNeighborGWAS", "Title": "Testing Neighbor Effects in Marker-Based Regressions", "Version": "1.2.5", "Authors@R": "c(\nperson(given = \"Yasuhiro\", family = \"Sato\", role = c(\"aut\", \"cre\"), email = \"sato.yasuhiro.36c@kyoto-u.jp\", comment = c(ORCID = \"0000-0002-6466-723X\")),\nperson(given = \"Eiji\", family = \"Yamamoto\", role = \"aut\"),\nperson(given = \"Kentaro K.\", family = \"Shimizu\", role = \"aut\", comment = c(ORCID = \"0000-0002-6483-1781\")),\nperson(given = \"Atsushi J.\", family = \"Nagano\", role = \"aut\", comment = c(ORCID = \"0000-0001-7891-5049\")))", "Description": "To incorporate neighbor genotypic identity into\ngenome-wide association studies, the package provides a set of\nfunctions for variation partitioning and association mapping.\nThe theoretical background of the method is described in Sato\net al. (2021) .", "License": "GPL-3", "Encoding": "UTF-8", "RoxygenNote": "7.3.2", "Maintainer": "Yasuhiro Sato ", "VignetteBuilder": "knitr", "NeedsCompilation": "no", "Packaged": { "Date": "2026-05-12 08:48:41 UTC", "User": "root" }, "Author": "Yasuhiro Sato [aut, cre]\n(), Eiji Yamamoto [aut],\nKentaro K. Shimizu [aut]\n(), Atsushi J. Nagano\n[aut] ()", "Repository": "https://cran.r-universe.dev", "Date/Publication": "2025-04-23 03:30:02 UTC", "RemoteUrl": "https://github.com/cran/rNeighborGWAS", "RemoteRef": "HEAD", "RemoteSha": "9ee528022c022feabdc7ff1f0af5f249ecdfa7d5", "MD5sum": "81c24c252d43d1ffc318a19c44c6122e", "_user": "cran", "_type": "src", "_file": "rNeighborGWAS_1.2.5.tar.gz", "_fileid": "4a13c4b580b16bb556d22dd558d45df0136ea99f42fa10e93df474791b68266d", "_filesize": 448845, "_sha256": "4a13c4b580b16bb556d22dd558d45df0136ea99f42fa10e93df474791b68266d", "_created": "2026-05-12T08:48:41.000Z", "_published": "2026-05-22T10:36:41.607Z", "_distro": "noble", "_jobs": [ { "job": 77362960577, "time": 202, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "6939726664" }, { "job": 77362960452, "time": 176, "config": "linux-release-x86_64", "r": "4.6.0", "check": "OK", "artifact": "6939718069" }, { "job": 77362959848, "time": 231, "config": "source", "r": "4.6.0", "check": "OK", "artifact": "6939655630" }, { "job": 77362959970, "time": 101, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "7158490979" } ], "_buildurl": "https://github.com/r-universe/cran/actions/runs/25723609005", "_status": "success", "_host": "GitHub-Actions", "_upstream": "https://github.com/cran/rNeighborGWAS", "_commit": { "id": "9ee528022c022feabdc7ff1f0af5f249ecdfa7d5", "author": "Yasuhiro Sato ", "committer": "cran-robot ", "message": "version 1.2.5\n", "time": 1745379002 }, "_maintainer": { "name": "Yasuhiro Sato", "email": "sato.yasuhiro.36c@kyoto-u.jp", "orcid": "0000-0002-6466-723X" }, "_registered": true, "_dependencies": [ { "package": "gaston", "role": "Imports" }, { "package": "Matrix", "role": "Imports" }, { "package": "RcppParallel", "role": "Imports" }, { "package": "stats", "role": "Imports" }, { "package": "graphics", "role": "Imports" }, { "package": "knitr", "role": "Suggests" }, { "package": "rmarkdown", "role": "Suggests" }, { "package": "testthat", "role": "Suggests" } ], "_owner": "cran", "_selfowned": false, "_usedby": 0, "_updates": [], "_tags": [], "_stars": 0, "_userbio": { "uuid": 6899542, "type": "organization", "name": "cran", "description": "Unofficial read-only mirror of all CRAN R packages" }, "_downloads": { "count": 576, "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/rNeighborGWAS" }, "_mentions": 2, "_searchresults": 15, "_rbuild": "4.6.0", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/rNeighborGWAS.html", "manual.pdf" ], "_realowner": "cran", "_cranurl": false, "_releases": [ { "version": "1.0.0", "date": "2020-04-15" }, { "version": "1.2.0", "date": "2020-07-06" }, { "version": "1.2.1", "date": "2020-07-22" }, { "version": "1.2.2", "date": "2020-11-23" }, { "version": "1.2.3", "date": "2021-04-07" }, { "version": "1.2.4", "date": "2021-05-10" }, { "version": "1.2.5", "date": "2025-04-23" } ], "_exports": [ "calc_PVEnei", "delta_PVE", "gaston2neiGWAS", "min_dist", "nei_coval", "nei_lm", "nei_lmm", "nei_simu", "neiGWAS" ], "_help": [ { "page": "calc_PVEnei", "title": "Calculating phenotypic variation explained by neighbor effects", "topics": [ "calc_PVEnei" ] }, { "page": "delta_PVE", "title": "Estimating the effective scale of neighbor effects", "topics": [ "delta_PVE" ] }, { "page": "gaston2neiGWAS", "title": "Convert 'gaston' package's bed.matrix data to rNeighborGWAS genotype data.", "topics": [ "gaston2neiGWAS" ] }, { "page": "min_dist", "title": "Calculating the minimum distance", "topics": [ "min_dist" ] }, { "page": "nei_coval", "title": "Calculating neighbor genotypic identity", "topics": [ "nei_coval" ] }, { "page": "nei_lm", "title": "Standard linear models for testing self and neighbor effects", "topics": [ "nei_lm" ] }, { "page": "nei_lmm", "title": "Mixed models for testing self and neighbor effects", "topics": [ "nei_lmm" ] }, { "page": "nei_simu", "title": "Simulating phenotypes with self and neighbor effects", "topics": [ "nei_simu" ] }, { "page": "neiGWAS", "title": "Genome-wide association mapping of neighbor effects", "topics": [ "neiGWAS" ] }, { "page": "qtl_pheno_simu", "title": "Simulating phenotype values with neighbor effects.", "topics": [ "qtl_pheno_simu" ] }, { "page": "w", "title": "Calculating a distance decay weight", "topics": [ "w" ] } ], "_rundeps": [ "gaston", "lattice", "Matrix", "Rcpp", "RcppEigen", "RcppParallel" ], "_vignettes": [ { "source": "rNeighborGWAS.Rmd", "filename": "rNeighborGWAS.html", "title": "rNeighborGWAS", "engine": "knitr::rmarkdown", "headings": [ "Overview", "Input files", "convert \"TTN\" genotype data into a rNeighborGWAS format", "simulate \"fake_nei\" dataset using nei_simu()", "Association mapping", "Binary phenotype", "References" ], "created": "2020-04-15 12:20:02", "modified": "2025-04-23 03:30:02", "commits": 5 } ], "_score": 2.4771212547196626, "_indexed": true, "_nocasepkg": "rneighborgwas", "_universes": [ "cran" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "1.2.5", "date": "2026-05-12T08:51:36.000Z", "distro": "noble", "commit": "9ee528022c022feabdc7ff1f0af5f249ecdfa7d5", "fileid": "1273b542c5f381af2790fa5d44c21b71c2a97d7ef3dd506929de25ca8ecd74cb", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/cran/actions/runs/25723609005" }, { "r": "4.6.0", "os": "linux", "version": "1.2.5", "date": "2026-05-12T08:51:01.000Z", "distro": "noble", "commit": "9ee528022c022feabdc7ff1f0af5f249ecdfa7d5", "fileid": "26593bc7621442ae6dfad2d8401124e60f2e9f0d532e97fbc24c25400508527c", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/cran/actions/runs/25723609005" }, { "r": "4.6.0", "os": "wasm", "version": "1.2.5", "date": "2026-05-22T10:36:26.000Z", "commit": "9ee528022c022feabdc7ff1f0af5f249ecdfa7d5", "fileid": "1e344e6a535936e25bb67cc86e616c70a8ece68b59bba4f0460703e6e5a4ad43", "status": "success", "buildurl": "https://github.com/r-universe/cran/actions/runs/25723609005" } ] }