{ "_id": "6ac24820d743750d376d7bf0", "Package": "TriadSim", "Title": "Simulating Triad Genomewide Genotypes", "Version": "0.3.1", "Authors@R": "person(\"Min\", \"Shi\", email = \"shi2@niehs.nih.gov\", role = c(\"aut\", \"cre\"))", "Description": "Simulate genotypes for case-parent triads, case-control,\nand quantitative trait samples with realistic linkage\ndiequilibrium structure and allele frequency distribution. For\nstudies of epistasis one can simulate models that involve\nspecific SNPs at specific sets of loci, which we will refer to\nas \"pathways\". TriadSim generates genotype data by resampling\ntriad genotypes from existing data. The details of the method\nis described in the manuscript under preparation \"Simulating\nAutosomal Genotypes with Realistic Linkage Disequilibrium and a\nSpiked in Genetic Effect\" Shi, M., Umbach, D.M., Wise A.S.,\nWeinberg, C.R.", "License": "GPL-3", "biocViews": "snpStats", "Encoding": "UTF-8", "LazyData": "true", "RoxygenNote": "7.1.1", "VignetteBuilder": "knitr", "NeedsCompilation": "no", "Author": "Min Shi [aut, cre]", "Maintainer": "Min Shi ", "Packaged": { "Date": "2026-10-04 12:33:16 UTC", "User": "root" }, "Config/pak/sysreqs": "zlib1g-dev", "Repository": "https://cran.r-universe.dev", "Date/Publication": "2026-02-22 14:00:02 UTC", "RemoteUrl": "https://github.com/cran/TriadSim", "RemoteRef": "HEAD", "RemoteSha": "2d2760ab7526cfbbed8894c2b95bd183d27e73d2", "_user": "cran", "_type": "src", "_file": "TriadSim_0.3.1.tar.gz", "_fileid": "https://r2.ropensci.org/31589e420b1ba02384cce109acf51075e23e485403e7d759948f109ef4784b68", "_filesize": 648280, "_sha256": "31589e420b1ba02384cce109acf51075e23e485403e7d759948f109ef4784b68", "_expires": "2027-01-12T12:35:42.000Z", "_created": "2026-10-04T12:33:16.000Z", "_published": "2026-10-04T12:35:44.228Z", "_jobs": [ { "job": 111436949367, "time": 108, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "11302919047" }, { "job": 111436949377, "time": 106, "config": "linux-release-x86_64", "r": "4.6.1", "check": "OK", "artifact": "11302919045" }, { "job": 111436267884, "time": 240, "config": "source", "r": "4.6.1", "check": "OK", "artifact": "11303053281" }, { "job": 111436949384, "time": 95, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "11303795763" }, { "job": 111436949418, "time": 62, "config": "windows-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "11303760804" }, { "job": 111436949379, "time": 66, "config": "windows-release-x86_64", "r": "4.6.1", "check": "OK", "artifact": "11303163294" } ], "_host": "GitHub-Actions", "_buildurl": "https://github.com/r-universe/cran/actions/runs/37202267860", "_status": "success", "_upstream": "https://github.com/cran/TriadSim", "_commit": { "id": "2d2760ab7526cfbbed8894c2b95bd183d27e73d2", "author": "Min Shi ", "committer": "cran-robot ", "message": "version 0.3.1\n", "time": 1771768802 }, "_maintainer": { "name": "Min Shi", "email": "shi2@niehs.nih.gov" }, "_distro": "resolute", "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 3.2.2", "role": "Depends" }, { "package": "methods", "role": "Imports" }, { "package": "parallel", "role": "Imports" }, { "package": "snpStats", "role": "Imports" }, { "package": "foreach", "role": "Imports" }, { "package": "doParallel", "role": "Imports" }, { "package": "knitr", "role": "Suggests" }, { "package": "rmarkdown", "role": "Suggests" } ], "_owner": "cran", "_selfowned": false, "_usedby": 0, "_updates": [ { "week": "2026-08", "n": 1 } ], "_tags": [ { "name": "0.3.1", "date": "2026-02-22" } ], "_topics": [ "snpstats" ], "_stars": 0, "_userbio": { "uuid": 6899542, "type": "organization", "name": "cran", "followers": 630, "description": "Unofficial read-only mirror of all CRAN R packages" }, "_downloads": { "count": 284, "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/TriadSim" }, "_mentions": 2, "_searchresults": 0, "_rbuild": "4.6.1", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/manual.pdf", "extra/NEWS.html", "extra/NEWS.txt", "extra/readme.html", "extra/readme.md", "extra/TriadSim.html" ], "_realowner": "cran", "_cranurl": false, "_releases": [ { "version": "0.0.1", "date": "2017-05-12" }, { "version": "0.1.1", "date": "2017-05-25" }, { "version": "0.2.0", "date": "2020-07-12" }, { "version": "0.3.0", "date": "2021-09-08" }, { "version": "0.3.1", "date": "2026-02-22" } ], "_exports": [ "fit.risk.model.par", "get.brks", "get.target.geno", "glue.chr.segment.par", "pick_target.snp", "TriadSim" ], "_datasets": [ { "name": "rcmb.rate", "title": "An example recombination rate dataset", "object": "rcmb.rate", "class": [ "data.frame" ], "fields": [ "CHR", "RS", "POS", "RATE" ], "rows": 412, "table": true, "tojson": true }, { "name": "snp.all2", "title": "SNPs in the PLINK files", "object": "snp.all2", "class": [ "data.frame" ], "fields": [ "ord", "RS", "CHR", "POS", "A1", "A2", "MAF", "NCHROBS" ], "rows": 412, "table": true, "tojson": true } ], "_help": [ { "page": "fit.risk.model.par", "title": "Resample families based on the risk model", "topics": [ "fit.risk.model.par" ] }, { "page": "get.brks", "title": "Picking chromosomal breaking points", "topics": [ "get.brks" ] }, { "page": "get.target.geno", "title": "Getting genotypes of the target SNPs", "topics": [ "get.target.geno" ] }, { "page": "glue.chr.segment.par", "title": "Splicing chromosomal segments", "topics": [ "glue.chr.segment.par" ] }, { "page": "pick_target.snp", "title": "Pick target SNPs in the pathway", "topics": [ "pick_target.snp" ] }, { "page": "rcmb.rate", "title": "An example recombination rate dataset", "topics": [ "rcmb.rate" ] }, { "page": "snp.all2", "title": "SNPs in the PLINK files", "topics": [ "snp.all2" ] }, { "page": "TriadSim", "title": "Simulation main function", "topics": [ "TriadSim" ] } ], "_readme": "https://github.com/cran/TriadSim/raw/HEAD/README.md", "_rundeps": [ "BiocGenerics", "codetools", "doParallel", "foreach", "generics", "iterators", "lattice", "Matrix", "snpStats", "survival" ], "_vignettes": [ { "source": "TriadSim.Rmd", "filename": "TriadSim.html", "title": "TriadSim Vignette", "author": "Min Shi", "engine": "knitr::rmarkdown", "headings": [ "Main function TriadSim", "Some additional details" ], "created": "2017-05-12 22:20:41", "modified": "2020-07-12 14:30:06", "commits": 3 } ], "_score": 3, "_indexed": true, "_nocasepkg": "triadsim", "_universes": [ "cran" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "0.3.1", "date": "2026-10-04T12:35:07.000Z", "distro": "resolute", "commit": "2d2760ab7526cfbbed8894c2b95bd183d27e73d2", "fileid": "https://r2.ropensci.org/943d6e94635d96ccb3c4d35ca72d524536a3bf84a9c605e3d5a82f0b45c28024", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/cran/actions/runs/37202267860" }, { "r": "4.6.1", "os": "linux", "version": "0.3.1", "date": "2026-10-04T12:35:09.000Z", "distro": "resolute", "commit": "2d2760ab7526cfbbed8894c2b95bd183d27e73d2", "fileid": "https://r2.ropensci.org/ab8d1812723b58c03e59d7eef7af05bb4d3bfc3ce05ee30053e20f2088ae6996", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/cran/actions/runs/37202267860" }, { "r": "4.6.0", "os": "wasm", "version": "0.3.1", "date": "2026-10-04T12:35:09.000Z", "commit": "2d2760ab7526cfbbed8894c2b95bd183d27e73d2", "fileid": "https://r2.ropensci.org/be5dda4a195a94bec5e0d760a249506100e4726b4bbe43e0256c74af29effd32", "status": "success", "buildurl": "https://github.com/r-universe/cran/actions/runs/37202267860" }, { "r": "4.7.0", "os": "win", "version": "0.3.1", "date": "2026-10-04T12:34:18.000Z", "commit": "2d2760ab7526cfbbed8894c2b95bd183d27e73d2", "fileid": "https://r2.ropensci.org/cec5666b9a2809319bbf54ce19e148e6ec3826322e1f884b4a9c6c03b3f29959", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/cran/actions/runs/37202267860" }, { "r": "4.6.1", "os": "win", "version": "0.3.1", "date": "2026-10-04T12:34:23.000Z", "commit": "2d2760ab7526cfbbed8894c2b95bd183d27e73d2", "fileid": "https://r2.ropensci.org/a7ba5882f707ad5b9eff6359c46f17eb6153fed9be923636ce1661517c5aeabe", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/cran/actions/runs/37202267860" } ] }