{ "_id": "6a1c03fd1d7bb097a0a2a26f", "Package": "SMUT", "Type": "Package", "Title": "Multi-SNP Mediation Intersection-Union Test", "Version": "1.3", "Author": "Wujuan Zhong", "Maintainer": "Wujuan Zhong ", "Description": "Testing the mediation effect of multiple SNPs on an\noutcome through a mediator.", "LazyData": "true", "License": "GPL (>= 2)", "NeedsCompilation": "yes", "Packaged": { "Date": "2026-05-31 09:42:55 UTC", "User": "root" }, "VignetteBuilder": "knitr", "Repository": "https://wjzhong.r-universe.dev", "Date/Publication": "2020-11-23 01:46:24 UTC", "RemoteUrl": "https://github.com/wjzhong/smut", "RemoteRef": "HEAD", "RemoteSha": "492c1c65537bad701282b93f34371d921dbf6189", "MD5sum": "d5c5d8b4bacedf93789380ad2f7f687c", "_user": "wjzhong", "_type": "src", "_file": "SMUT_1.3.tar.gz", "_fileid": "bd38868b41ee246c87e1eb2f4fc8a311992cfb5f54ca74a44b3d08b79e531050", "_filesize": 128770, "_sha256": "bd38868b41ee246c87e1eb2f4fc8a311992cfb5f54ca74a44b3d08b79e531050", "_created": "2026-05-31T09:42:55.000Z", "_published": "2026-05-31T09:48:45.589Z", "_distro": "noble", "_jobs": [ { "job": 78716157738, "time": 130, "config": "linux-devel-arm64", "r": "4.7.0", "check": "OK", "artifact": "7315703464" }, { "job": 78716157744, "time": 181, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "7315708420" }, { "job": 78716157715, "time": 136, "config": "linux-release-arm64", "r": "4.6.0", "check": "OK", "artifact": "7315703999" }, { "job": 78716157718, "time": 134, "config": "linux-release-x86_64", "r": "4.6.0", "check": "OK", "artifact": "7315703850" }, { "job": 78716157774, "time": 229, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "OK", "artifact": "7315710492" }, { "job": 78716157757, "time": 313, "config": "macos-oldrel-x86_64", "r": "4.5.3", "check": "OK", "artifact": "7315719108" }, { "job": 78716157763, "time": 155, "config": "macos-release-arm64", "r": "4.6.0", "check": "OK", "artifact": "7315703792" }, { "job": 78716157758, "time": 280, "config": "macos-release-x86_64", "r": "4.6.0", "check": "OK", "artifact": "7315715790" }, { "job": 78715986525, "time": 187, "config": "source", "r": "4.6.0", "check": "OK", "artifact": "7315691017" }, { "job": 78716157666, "time": 102, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "7315700826" }, { "job": 78716157691, "time": 119, "config": "windows-devel", "r": "4.7.0", "check": "OK", "artifact": "7315702298" }, { "job": 78716157686, "time": 173, "config": "windows-oldrel", "r": "4.5.3", "check": "OK", "artifact": "7315707808" }, { "job": 78716157695, "time": 136, "config": "windows-release", "r": "4.6.0", "check": "OK", "artifact": "7315703834" } ], "_buildurl": "https://github.com/r-universe/wjzhong/actions/runs/26709142045", "_status": "success", "_host": "GitHub-Actions", "_upstream": "https://github.com/wjzhong/smut", "_commit": { "id": "492c1c65537bad701282b93f34371d921dbf6189", "author": "Wujuan Zhong ", "committer": "Wujuan Zhong ", "message": "update vignettes\n", "time": 1606095984 }, "_maintainer": { "name": "Wujuan Zhong", "email": "zhongwujuan@gmail.com", "login": "wjzhong", "description": "", "uuid": 34694327 }, "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 2.10", "role": "Depends" }, { "package": "Rcpp", "role": "LinkingTo" }, { "package": "RcppEigen", "role": "LinkingTo" }, { "package": "Rcpp", "version": ">= 0.12.14", "role": "Imports" }, { "package": "SKAT", "role": "Imports" }, { "package": "MASS", "role": "Imports" }, { "package": "knitr", "role": "Suggests" }, { "package": "rmarkdown", "role": "Suggests" } ], "_owner": "wjzhong", "_selfowned": true, "_usedby": 2, "_updates": [], "_tags": [], "_stars": 1, "_contributors": [ { "user": "wjzhong", "count": 5, "uuid": 34694327 } ], "_userbio": { "uuid": 34694327, "type": "user", "name": "wjzhong" }, "_downloads": { "count": 335, "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/SMUT" }, "_mentions": 1, "_devurl": "https://github.com/wjzhong/smut", "_searchresults": 29, "_topics": [ "cpp" ], "_rbuild": "4.6.0", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/readme.html", "extra/readme.md", "extra/SMUT.html", "manual.pdf" ], "_homeurl": "https://github.com/wjzhong/smut", "_realowner": "wjzhong", "_cranurl": true, "_releases": [ { "version": "1.0", "date": "2018-10-08" }, { "version": "1.0.1", "date": "2019-04-08" }, { "version": "1.1", "date": "2019-09-24" } ], "_exports": [ "eigenMapMatMult", "Generalized_Testing_coefficient_of_mediator", "GSMUT", "SMUT", "Testing_coefficient_of_mediator" ], "_datasets": [ { "name": "Genotype_data", "title": "Example genotype data for SMUT", "object": "Genotype_data", "class": [ "matrix", "array" ], "fields": [ "SNP_1", "SNP_2", "SNP_3", "SNP_4", "SNP_5", "SNP_6", "SNP_7", "SNP_8", "SNP_9", "SNP_10", "SNP_11", "SNP_12", "SNP_13", "SNP_14", "SNP_15", "SNP_16", "SNP_17", "SNP_18", "SNP_19", "SNP_20", "SNP_21", "SNP_22", "SNP_23", "SNP_24", "SNP_25", "SNP_26", "SNP_27", "SNP_28", "SNP_29", "SNP_30", "SNP_31", "SNP_32", "SNP_33", "SNP_34", "SNP_35", "SNP_36", "SNP_37", "SNP_38", "SNP_39", "SNP_40", "SNP_41", "SNP_42", "SNP_43", "SNP_44", "SNP_45", "SNP_46", "SNP_47", "SNP_48", "SNP_49", "SNP_50", "SNP_51", "SNP_52", "SNP_53", "SNP_54", "SNP_55", "SNP_56", "SNP_57", "SNP_58", "SNP_59", "SNP_60", "SNP_61", "SNP_62", "SNP_63", "SNP_64", "SNP_65", "SNP_66", "SNP_67", "SNP_68", "SNP_69", "SNP_70", "SNP_71", "SNP_72", "SNP_73", "SNP_74", "SNP_75", "SNP_76", "SNP_77", "SNP_78", "SNP_79", "SNP_80", "SNP_81", "SNP_82", "SNP_83", "SNP_84", "SNP_85", "SNP_86", "SNP_87", "SNP_88", "SNP_89", "SNP_90", "SNP_91", "SNP_92", "SNP_93", "SNP_94", "SNP_95", "SNP_96", "SNP_97", "SNP_98", "SNP_99", "SNP_100", "SNP_101", "SNP_102", "SNP_103", "SNP_104", "SNP_105", "SNP_106", "SNP_107", "SNP_108", "SNP_109", "SNP_110", "SNP_111", "SNP_112", "SNP_113", "SNP_114", "SNP_115", "SNP_116", "SNP_117", "SNP_118", "SNP_119", "SNP_120", "SNP_121", "SNP_122", "SNP_123", "SNP_124", "SNP_125", "SNP_126", "SNP_127", "SNP_128", "SNP_129", "SNP_130", "SNP_131", "SNP_132", "SNP_133", "SNP_134", "SNP_135", "SNP_136", "SNP_137", "SNP_138", "SNP_139", "SNP_140", "SNP_141", "SNP_142", "SNP_143", "SNP_144", "SNP_145", "SNP_146", "SNP_147", "SNP_148", "SNP_149", "SNP_150", "SNP_151", "SNP_152", "SNP_153", "SNP_154", "SNP_155", "SNP_156", "SNP_157", "SNP_158", "SNP_159", "SNP_160", "SNP_161", "SNP_162", "SNP_163", "SNP_164", "SNP_165", "SNP_166", "SNP_167", "SNP_168", "SNP_169", "SNP_170", "SNP_171", "SNP_172", "SNP_173", "SNP_174", "SNP_175", "SNP_176", "SNP_177", "SNP_178", "SNP_179", "SNP_180", "SNP_181", "SNP_182", "SNP_183", "SNP_184", "SNP_185", "SNP_186", "SNP_187", "SNP_188", "SNP_189", "SNP_190", "SNP_191", "SNP_192", "SNP_193", "SNP_194", "SNP_195", "SNP_196", "SNP_197", "SNP_198", "SNP_199", "SNP_200" ], "rows": 100, "table": true, "tojson": true } ], "_help": [ { "page": "eigenMapMatMult", "title": "Matrix multiplication using RcppEigen", "topics": [ "eigenMapMatMult" ] }, { "page": "Generalized_Testing_coefficient_of_mediator", "title": "Testing coefficient of mediator in the outcome model for an outcome following an exponential family distribution or a survival outcome", "topics": [ "Generalized_Testing_coefficient_of_mediator" ] }, { "page": "Genotype_data", "title": "Example genotype data for SMUT", "topics": [ "Genotype_data" ] }, { "page": "GSMUT", "title": "Generalized Multi-SNP Mediation Intersection-Union Test", "topics": [ "GSMUT" ] }, { "page": "SMUT", "title": "Multi-SNP Mediation Intersection-Union Test", "topics": [ "SMUT" ] }, { "page": "Testing_coefficient_of_mediator", "title": "Testing coefficient of mediator in the outcome model", "topics": [ "Testing_coefficient_of_mediator" ] } ], "_readme": "https://github.com/wjzhong/smut/raw/HEAD/README.md", "_rundeps": [ "lattice", "MASS", "Matrix", "Rcpp", "RcppEigen", "RSpectra", "SKAT", "SPAtest" ], "_sysdeps": [ { "shlib": "libstdc++", "package": "libstdc++6", "source": "gcc", "version": "14.2.0-4ubuntu2~24.04.1", "name": "c++", "homepage": "http://gcc.gnu.org/", "description": "GNU Standard C++ Library v3" } ], "_vignettes": [ { "source": "SMUT.Rmd", "filename": "SMUT.html", "title": "SMUT Package: Testing the Mediation Effect of Multiple SNPs on an Outcome Through a Mediator", "author": "Wujuan Zhong", "engine": "knitr::rmarkdown", "headings": [ "0. Installation", "1. Overview", "2. Multi-SNP Mediation Intersection-Union Test (SMUT) : Testing mediation effects of multiple SNPs on a continuous outcome through a continuous mediator", "2.1 Mediator model", "2.2 Outcome model", "2.3 Testing $\\beta$ in the mediator model and $\\theta$ in the outcome model", "2.4 Example of running R function SMUT", "2.5 References", "3. Generalized Multi-SNP Mediation Intersection-Union Test (GSMUT) : Testing mediation effects of multiple SNPs on a continuous, binary, count or time-to-event outcome through a continuous mediator", "3.1 Mediator model", "3.2 Outcome model", "3.2.1 For a continuous, binary or count outcome", "3.2.2 For a time-to-event outcome", "3.3 Testing $\\beta$ in the mediator model and $\\theta$ in the outcome model", "3.4 Example of running R function GSMUT", "3.5 Options for the parameter outcome_type in the GSMUT function", "3.6 References" ], "created": "2020-11-22 12:18:58", "modified": "2020-11-23 01:46:24", "commits": 4 } ], "_score": 4.939519252618618, "_indexed": true, "_nocasepkg": "smut", "_universes": [ "wjzhong" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "1.3", "date": "2026-05-31T09:44:56.000Z", "distro": "noble", "arch": "aarch64", "commit": "492c1c65537bad701282b93f34371d921dbf6189", "fileid": "fb64cbab8226d2424b683cf11acc43cb1f28ceff0f745be09dd856e15455f2ff", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/wjzhong/actions/runs/26709142045" }, { "r": "4.7.0", "os": "linux", "version": "1.3", "date": "2026-05-31T09:45:38.000Z", "distro": "noble", "arch": "x86_64", "commit": "492c1c65537bad701282b93f34371d921dbf6189", "fileid": "a1cdd764d5f00fbe7c651da5c60b050a39cbed25199aed6f87f060857386fd6d", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/wjzhong/actions/runs/26709142045" }, { "r": "4.6.0", "os": "linux", "version": "1.3", "date": "2026-05-31T09:45:02.000Z", "distro": "noble", "arch": "aarch64", "commit": "492c1c65537bad701282b93f34371d921dbf6189", "fileid": "cfad54ab00dbed437d449050b102fe71ec76fa14a1508565f099a4187cee7464", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/wjzhong/actions/runs/26709142045" }, { "r": "4.6.0", "os": "linux", "version": "1.3", "date": "2026-05-31T09:44:55.000Z", "distro": "noble", "arch": "x86_64", "commit": "492c1c65537bad701282b93f34371d921dbf6189", "fileid": "bf75750c3668e609a15c2c0138135c53e532e0c13a81f4ca677bfeff0444911c", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/wjzhong/actions/runs/26709142045" }, { "r": "4.5.3", "os": "mac", "version": "1.3", "date": "2026-05-31T09:45:56.000Z", "arch": "aarch64", "commit": "492c1c65537bad701282b93f34371d921dbf6189", "fileid": "2643c2b21dc09506d8e5ac79319beabac8938c6a2cc892f8b30308ac4f63f8f5", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/wjzhong/actions/runs/26709142045" }, { "r": "4.5.3", "os": "mac", "version": "1.3", "date": "2026-05-31T09:47:17.000Z", "arch": "x86_64", "commit": "492c1c65537bad701282b93f34371d921dbf6189", "fileid": "a4d5a759b66f00292ef28e2f5b07c787f44483a3ab216b6263711a0b13212116", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/wjzhong/actions/runs/26709142045" }, { "r": "4.6.0", "os": "mac", "version": "1.3", "date": "2026-05-31T09:45:06.000Z", "arch": "aarch64", "commit": "492c1c65537bad701282b93f34371d921dbf6189", "fileid": "e5bcaff3bfda35936ee0e97ff339c27e20f5544cfbaedc93cced3851bf587797", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/wjzhong/actions/runs/26709142045" }, { "r": "4.6.0", "os": "mac", "version": "1.3", "date": "2026-05-31T09:46:26.000Z", "arch": "x86_64", "commit": "492c1c65537bad701282b93f34371d921dbf6189", "fileid": "3d6bbe7cee447f94497b6d8be4924fdea5e02b9a278db62b426c880799df1d34", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/wjzhong/actions/runs/26709142045" }, { "r": "4.6.0", "os": "wasm", "version": "1.3", "date": "2026-05-31T09:44:55.000Z", "arch": "emscripten", "commit": "492c1c65537bad701282b93f34371d921dbf6189", "fileid": "3a8a58bd984cd3aad1d9d570a49fe28e68b5b5b718cab8ec34f28f55c84268cc", "status": "success", "buildurl": "https://github.com/r-universe/wjzhong/actions/runs/26709142045" }, { "r": "4.7.0", "os": "win", "version": "1.3", "date": "2026-05-31T09:44:15.000Z", "arch": "x86_64", "commit": "492c1c65537bad701282b93f34371d921dbf6189", "fileid": "d00bdfbbf08b9b7f99e7767e9e7ae1d53131fefd079807eed08ec05d06cbc953", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/wjzhong/actions/runs/26709142045" }, { "r": "4.5.3", "os": "win", "version": "1.3", "date": "2026-05-31T09:44:58.000Z", "arch": "x86_64", "commit": "492c1c65537bad701282b93f34371d921dbf6189", "fileid": "75afb5a56e8b8f853222cc0006f723acaec461cb2c88741750e6ffaeb8f43240", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/wjzhong/actions/runs/26709142045" }, { "r": "4.6.0", "os": "win", "version": "1.3", "date": "2026-05-31T09:44:12.000Z", "arch": "x86_64", "commit": "492c1c65537bad701282b93f34371d921dbf6189", "fileid": "e7d4f7e62bd1332b1731c115a5be827e07f232d84d2fa3be3c855ea34eb1c970", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/wjzhong/actions/runs/26709142045" } ] }