{ "_id": "6a1acd691d7bb097a09df327", "Package": "GMRP", "Type": "Package", "Title": "GWAS-based Mendelian Randomization and Path Analyses", "Version": "1.41.0", "Date": "2018-04-15", "Author": "Yuan-De Tan", "Maintainer": "Yuan-De Tan ", "Description": "Perform Mendelian randomization analysis of multiple SNPs\nto determine risk factors causing disease of study and to\nexclude confounding variabels and perform path analysis to\nconstruct path of risk factors to the disease.", "License": "GPL (>= 2)", "LazyLoad": "yes", "biocViews": "Sequencing, Regression, SNP", "NeedsCompilation": "no", "Repository": "https://bioc.r-universe.dev", "Date/Publication": "2026-04-28 12:48:12 UTC", "RemoteUrl": "https://github.com/bioc/GMRP", "RemoteRef": "HEAD", "RemoteSha": "a31ee7640e980f98f71a55c92f78003074afa663", "Packaged": { "Date": "2026-05-30 08:10:37 UTC", "User": "root" }, "MD5sum": "70706f259d629023f11c580d709c2600", "_user": "bioc", "_type": "src", "_file": "GMRP_1.41.0.tar.gz", "_fileid": "e19f1a3f973b90f2713da2481ce47aecce9934e2f799e39268d30ed39f213afd", "_filesize": 1071595, "_sha256": "e19f1a3f973b90f2713da2481ce47aecce9934e2f799e39268d30ed39f213afd", "_created": "2026-05-30T08:10:37.000Z", "_published": "2026-05-30T11:43:37.748Z", "_jobs": [ { "job": 78635697155, "time": 149, "config": "bioc-checks", "r": "4.6.0", "check": "ERROR", "artifact": "7306741023" }, { "job": 78635697186, "time": 179, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "NOTE", "artifact": "7306744080" }, { "job": 78635697184, "time": 201, "config": "linux-release-x86_64", "r": "4.6.0", "check": "NOTE", "artifact": "7306746029" }, { "job": 78635697161, "time": 106, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "NOTE", "artifact": "7307926898" }, { "job": 78635697174, "time": 95, "config": "macos-release-arm64", "r": "4.6.0", "check": "NOTE", "artifact": "7307925659" }, { "job": 78635477901, "time": 261, "config": "source", "r": "4.6.0", "check": "OK", "artifact": "7306726295" }, { "job": 78635697189, "time": 102, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "7306736754" }, { "job": 78635697183, "time": 106, "config": "windows-devel", "r": "4.7.0", "check": "WARNING", "artifact": "7306737279" }, { "job": 78635697169, "time": 116, "config": "windows-oldrel", "r": "4.5.3", "check": "WARNING", "artifact": "7306738138" }, { "job": 78635697158, "time": 102, "config": "windows-release", "r": "4.6.0", "check": "WARNING", "artifact": "7306736857" } ], "_bioccheck": { "error": 2, "warning": 2, "note": 13 }, "_buildurl": "https://github.com/r-universe/bioc/actions/runs/26678815794", "_status": "success", "_host": "GitHub-Actions", "_upstream": "https://github.com/bioc/GMRP", "_commit": { "id": "a31ee7640e980f98f71a55c92f78003074afa663", "author": "A Wokaty ", "committer": "A Wokaty ", "message": "bump x.y.z version to odd y following creation of RELEASE_3_23 branch\n", "time": 1777380492 }, "_maintainer": { "name": "Yuan-De Tan", "email": "tanyuande@gmail.com", "login": "yuande", "description": "YuandeTan", "uuid": 14003650 }, "_distro": "noble", "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 3.3.0", "role": "Depends" }, { "package": "stats", "role": "Depends" }, { "package": "utils", "role": "Depends" }, { "package": "graphics", "role": "Depends" }, { "package": "grDevices", "role": "Depends" }, { "package": "diagram", "role": "Depends" }, { "package": "plotrix", "role": "Depends" }, { "package": "base", "role": "Depends" }, { "package": "GenomicRanges", "role": "Depends" }, { "package": "BiocStyle", "role": "Suggests" }, { "package": "BiocGenerics", "role": "Suggests" } ], "_owner": "bioc", "_selfowned": true, "_usedby": 0, "_updates": [ { "week": "2025-44", "n": 2 }, { "week": "2026-18", "n": 2 } ], "_tags": [], "_bioc": [ { "branch": "devel", "version": "1.41.0", "bioc": "3.24" }, { "branch": "release", "version": "1.40.0", "bioc": "3.23" } ], "_topics": [ "sequencing", "regression", "snp" ], "_userbio": { "uuid": 2286807, "type": "organization", "name": "Bioconductor", "description": "Software for the analysis and comprehension of high-throughput genomic data" }, "_downloads": { "count": 360, "source": "https://www.bioconductor.org/packages/stats/bioc/GMRP" }, "_searchresults": 8, "_rbuild": "4.6.0", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/GMRP.html", "extra/readme.html", "extra/readme.md", "manual.pdf" ], "_realowner": "bioc", "_cranurl": false, "_exports": [ "chrp", "fmerge", "mktable", "path", "pathdiagram", "pathdiagram2", "snpPositAnnot", "ucscannot" ], "_datasets": [ { "name": "beta.data", "title": "Beta Data Of SNP Regressed on Causal Variables and Disease", "object": "beta.data", "file": "beta.data.rda", "class": [ "data.frame" ], "fields": [ "cad", "ldl", "hdl", "tg", "tc" ], "rows": 368, "table": true, "tojson": true }, { "name": "cad.data", "title": "boldGWAS Meta-analyzed Data of Coronary Artery Disease", "object": "cad.data", "file": "cad.data.rda", "class": [ "data.table", "data.frame" ], "fields": [ "SNP", "chr_pos_b36", "reference_allele", "other_allele", "ref_allele_frequency", "pvalue", "het_pvalue", "log_odds", "log_odds_se", "N_case", "N_control", "model" ], "rows": 1609, "table": true, "tojson": true }, { "name": "lpd.data", "title": "*GWAS* Meta-analyzed Data of Lipoprotein Cholesterols", "object": "lpd.data", "file": "lpd.data.rda", "class": [ "data.table", "data.frame" ], "fields": [ "SNP_hg18.HDL", "SNP_hg19.HDL", "rsid.HDL", "A1.HDL", "A2.HDL", "beta.HDL", "se.HDL", "N.HDL", "P.value.HDL", "Freq.A1.1000G.EUR.HDL", "SNP_hg18.LDL", "SNP_hg19.LDL", "rsid.LDL", "A1.LDL", "A2.LDL", "beta.LDL", "se.LDL", "N.LDL", "P.value.LDL", "Freq.A1.1000G.EUR.LDL", "SNP_hg18.TG", "SNP_hg19.TG", "rsid.TG", "A1.TG", "A2.TG", "beta.TG", "se.TG", "N.TG", "P.value.TG", "Freq.A1.1000G.EUR.TG", "SNP_hg18.TC", "SNP_hg19.TC", "rsid.TC", "A1.TC", "A2.TC", "beta.TC", "se.TC", "N.TC", "P.value.TC", "Freq.A1.1000G.EUR.TC" ], "rows": 1609, "table": true, "tojson": true }, { "name": "SNP358.data", "title": "Data of 358 SNPs", "object": "SNP358.data", "file": "SNP358.data.rda", "class": [ "data.frame" ], "fields": [ "rsid", "chr", "posit" ], "rows": 358, "table": true, "tojson": true }, { "name": "SNP368annot.data", "title": "Annotation data of 368SNPs", "object": "SNP368annot.data", "file": "SNP368annot.data.rda", "class": [ "data.frame" ], "fields": [ "SNP", "Allele", "Strand", "Symbol", "Gene", "function_unit" ], "rows": 1053, "table": true, "tojson": true } ], "_help": [ { "page": "GMRP-package", "title": "*GWAS*-based Mendelian Randomization Path Analysis", "topics": [ "GMRP-package", "GMRP" ] }, { "page": "beta.data", "title": "Beta Data Of SNP Regressed on Causal Variables and Disease", "topics": [ "beta.data" ] }, { "page": "cad.data", "title": "boldGWAS Meta-analyzed Data of Coronary Artery Disease", "topics": [ "cad.data" ] }, { "page": "chrp", "title": "Split hg19", "topics": [ "chrp" ] }, { "page": "fmerge", "title": "Merge Two *GWAS* Result Data Sheets", "topics": [ "fmerge" ] }, { "page": "lpd.data", "title": "*GWAS* Meta-analyzed Data of Lipoprotein Cholesterols", "topics": [ "lpd.data" ] }, { "page": "mktable", "title": "Selection of SNPs and Creation of A Standard Table for Mendelian Randomization and Path Analyses", "topics": [ "mktable" ] }, { "page": "path", "title": "Path Analysis", "topics": [ "path" ] }, { "page": "pathdiagram", "title": "Path Diagram", "topics": [ "pathdiagram" ] }, { "page": "pathdiagram2", "title": "Two-level Nested Pathdiagram", "topics": [ "pathdiagram2" ] }, { "page": "SNP358.data", "title": "Data of 358 SNPs", "topics": [ "SNP358.data" ] }, { "page": "SNP368annot.data", "title": "Annotation data of 368SNPs", "topics": [ "SNP368annot.data" ] }, { "page": "snpPositAnnot", "title": "_SNP_ Position Annotation", "topics": [ "snpPositAnnot" ] }, { "page": "ucscannot", "title": "Functional Annotation of _SNP_s Chosen", "topics": [ "ucscannot" ] } ], "_readme": "https://github.com/bioc/GMRP/raw/HEAD/README.md", "_rundeps": [ "BiocGenerics", "diagram", "generics", "GenomicRanges", "IRanges", "plotrix", "S4Vectors", "Seqinfo", "shape" ], "_vignettes": [ { "source": "GMRP.Rnw", "filename": "GMRP.pdf", "title": "Causal Effect Analysis of Risk Factors for Disease with the \"GMRP\" package", "engine": "utils::Sweave", "headings": [], "created": "2016-03-23 22:36:02", "modified": "2018-05-12 17:57:17", "commits": 3 } ], "_score": 4, "_indexed": true, "_nocasepkg": "gmrp", "_universes": [ "bioc", "yuande" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "1.41.0", "date": "2026-05-30T08:13:09.000Z", "distro": "noble", "commit": "a31ee7640e980f98f71a55c92f78003074afa663", "fileid": "d743951600932f2ecea9d35b7f0ccf724224303577697cd4bcfa264c03298fcb", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26678815794" }, { "r": "4.6.0", "os": "linux", "version": "1.41.0", "date": "2026-05-30T08:13:34.000Z", "distro": "noble", "commit": "a31ee7640e980f98f71a55c92f78003074afa663", "fileid": "ed0b7539a83c68e686a5965b6d3f3aa9bbbea32937f03a7e13fa9218dbc13a18", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26678815794" }, { "r": "4.5.3", "os": "mac", "version": "1.41.0", "date": "2026-05-30T11:42:50.000Z", "commit": "a31ee7640e980f98f71a55c92f78003074afa663", "fileid": "266fa40b78f19f18b0a1d17a640aa476502ac08a61ca8ed06e83d77b1c1c7c84", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26678815794" }, { "r": "4.6.0", "os": "mac", "version": "1.41.0", "date": "2026-05-30T11:42:36.000Z", "commit": "a31ee7640e980f98f71a55c92f78003074afa663", "fileid": "7cdf41c942e6804f582cc0dca15560920a0a174364819589f2ee9c741ba6fc5d", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26678815794" }, { "r": "4.6.0", "os": "wasm", "version": "1.41.0", "date": "2026-05-30T08:12:40.000Z", "commit": "a31ee7640e980f98f71a55c92f78003074afa663", "fileid": "bfa1355f076674c8051adf20935a917885941e21d73e478934221847823aef0a", "status": "success", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26678815794" }, { "r": "4.7.0", "os": "win", "version": "1.41.0", "date": "2026-05-30T08:11:55.000Z", "commit": "a31ee7640e980f98f71a55c92f78003074afa663", "fileid": "09c8740ff434725ec78d4d136c80a513b2cbfc9b750092685c4842c765c02c78", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26678815794" }, { "r": "4.5.3", "os": "win", "version": "1.41.0", "date": "2026-05-30T08:12:07.000Z", "commit": "a31ee7640e980f98f71a55c92f78003074afa663", "fileid": "0b645dc52fddd42c34c31e8e469bb726d25162034c9a4eeb60d373cf561dfe46", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26678815794" }, { "r": "4.6.0", "os": "win", "version": "1.41.0", "date": "2026-05-30T08:11:51.000Z", "commit": "a31ee7640e980f98f71a55c92f78003074afa663", "fileid": "d56117a1570c55cb9fdca44ab8d459ba0761d75d65000ea159e71c81f02292b0", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26678815794" } ] }