{ "_id": "6acbaa60fe5cc25786e91fef", "Package": "heritability", "Type": "Package", "Title": "Marker-Based Estimation of Heritability Using Individual Plant\nor Plot Data", "Description": "Implements marker-based estimation of heritability when\nobservations on genetically identical replicates are available.\nThese can be either observations on individual plants or\nplot-level data in a field trial. Heritability can then be\nestimated using a mixed model for the individual plant or plot\ndata. For comparison, also mixed-model based estimation using\ngenotypic means and estimation of repeatability with ANOVA are\nimplemented. For illustration the package contains several\ndatasets for the model species Arabidopsis thaliana.", "Version": "1.5", "Date": "2026-06-11", "Authors@R": "c(person(given = \"Willem\", \nfamily = \"Kruijer\",\nrole = \"aut\",\nemail = \"wkruijer@protonmail.com\"),\nperson(given = \"Ian\",\nfamily = \"White\",\nrole = \"ctb\",\ncomment = \"the internal pin function\"),\nperson(given = \"Padraic\",\nfamily = \"Flood\",\nrole = \"dtc\"),\nperson(given = \"Rik\",\nfamily = \"Kooke\",\nrole = \"dtc\"),\nperson(given = \"Bart-Jan\",\nfamily = \"van Rossum\",\nrole = c(\"cre\", \"aut\"),\nemail = \"bart-jan.vanrossum@wur.nl\")\n)", "License": "GPL-3", "NeedsCompilation": "no", "Packaged": { "Date": "2026-10-11 15:18:07 UTC", "User": "root" }, "Author": "Willem Kruijer [aut], Ian White [ctb] (the internal pin\nfunction), Padraic Flood [dtc], Rik Kooke [dtc], Bart-Jan van\nRossum [cre, aut]", "Maintainer": "Bart-Jan van Rossum ", "Repository": "https://bartjanvanrossum.r-universe.dev", "Date/Publication": "2026-06-12 07:00:14 UTC", "RemoteUrl": "https://github.com/cran/heritability", "RemoteRef": "HEAD", "RemoteSha": "28b924ae5717f56e92fa536c00d601b4273d07a2", "_user": "bartjanvanrossum", "_type": "src", "_file": "heritability_1.5.tar.gz", "_fileid": "https://r2.ropensci.org/2cd60bd5b9105730512c6e6affcf8eca66bd8ade89c8819796c9b899ab647958", "_filesize": 1505860, "_sha256": "2cd60bd5b9105730512c6e6affcf8eca66bd8ade89c8819796c9b899ab647958", "_expires": "2027-01-19T15:25:18.000Z", "_created": "2026-10-11T15:18:07.000Z", "_published": "2026-10-11T15:25:20.210Z", "_buildurl": "https://github.com/r-universe/bartjanvanrossum/actions/runs/38150535611", "_status": "success", "_host": "GitHub-Actions", "_jobs": [ { "job": 114503444998, "time": 103, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "11706342840" }, { "job": 114503444898, "time": 96, "config": "linux-release-x86_64", "r": "4.6.1", "check": "OK", "artifact": "11706304267" }, { "job": 114503444988, "time": 105, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "OK", "artifact": "11706304886" }, { "job": 114503444883, "time": 86, "config": "macos-release-arm64", "r": "4.6.1", "check": "OK", "artifact": "11706549520" }, { "job": 114502947529, "time": 143, "config": "source", "r": "4.6.1", "check": "OK", "artifact": "11705653502" }, { "job": 114503444935, "time": 85, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "11706379327" }, { "job": 114503445019, "time": 57, "config": "windows-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "11706429050" }, { "job": 114503444918, "time": 72, "config": "windows-oldrel-x86_64", "r": "4.5.3", "check": "OK", "artifact": "11706109569" }, { "job": 114503444977, "time": 56, "config": "windows-release-x86_64", "r": "4.6.1", "check": "OK", "artifact": "11706114482" } ], "_upstream": "https://github.com/cran/heritability", "_commit": { "id": "28b924ae5717f56e92fa536c00d601b4273d07a2", "author": "Bart-Jan van Rossum ", "committer": "cran-robot ", "message": "version 1.5\n", "time": 1781247614 }, "_maintainer": { "name": "Bart-Jan van Rossum", "email": "bart-jan.vanrossum@wur.nl", "login": "bartjanvanrossum", "description": "", "uuid": 28725410 }, "_distro": "resolute", "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 4.0", "role": "Depends" }, { "package": "MASS", "version": ">= 3.1.20", "role": "Depends" }, { "package": "knitr", "role": "Suggests" }, { "package": "rmarkdown", "role": "Suggests" } ], "_owner": "cran", "_selfowned": true, "_usedby": 0, "_updates": [ { "week": "2026-24", "n": 1 } ], "_tags": [ { "name": "1.5", "date": "2026-06-12" } ], "_stars": 2, "_contributors": [ { "user": "wtkr", "count": 5, "uuid": 12052386 }, { "user": "bartjanvanrossum", "count": 1, "uuid": 28725410 } ], "_userbio": { "uuid": 28725410, "type": "user", "name": "Bart-Jan van Rossum", "followers": 4 }, "_downloads": { "count": 386, "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/heritability" }, "_mentions": 1, "_searchresults": 43, "_rbuild": "4.6.1", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/heritability.html", "extra/manual.pdf" ], "_realowner": "bartjanvanrossum", "_cranurl": false, "_releases": [ { "version": "1.0", "date": "2014-11-07" }, { "version": "1.1", "date": "2015-02-10" }, { "version": "1.2", "date": "2016-12-22" }, { "version": "1.3", "date": "2019-12-13" }, { "version": "1.4", "date": "2023-08-24" }, { "version": "1.5", "date": "2026-06-12" } ], "_exports": [ "marker_h2", "marker_h2_means", "repeatability" ], "_datasets": [ { "name": "BT_LW_H", "title": "Bolting time and leaf width for the Arabidopsis hapmap population.", "object": "BT_LW_H", "file": "BT_LW_H.rda", "class": [ "data.frame" ], "fields": [ "genotype", "replicate", "rep1", "rep2", "BT", "LW" ], "rows": 1014, "table": true, "tojson": true }, { "name": "K_atwell", "title": "Marker-based relatedness matrices for 3 populations of Arabidopsis thaliana.", "object": "K_atwell", "file": "K_atwell.rda", "class": [ "matrix", "array" ], "fields": [ "E8274", "E8230", "E6959", "E7525", "E6961", "E6967", "E6973", "E6974", "E6976", "E7516", "E6979", "E6980", "E6982", "E6983", "E6985", "E6931", "E6043", "E6945", "E7519", "E7526", "E7523", "E6956", "E6960", "E7524", "E6963", "E6964", "E6965", "E6966", "E6969", "E6971", "E6975", "E7517", "E6978", "E6981", "E6984", "E6899", "E6903", "E6904", "E6905", "E6906", "E6909", "E6911", "E6916", "E8215", "E6921", "E6932", "E6046", "E6944", "E7515", "E7514", "E6962", "E6968", "E6972", "E6970", "E6977", "E8329", "E7163", "E8258", "E8259", "E8290", "E7461", "E7323", "E8254", "E8270", "E8233", "E8285", "E6016", "E8423", "E8237", "E6040", "E6064", "E6957", "E8369", "E8247", "E8426", "E9058", "E8249", "E9057", "E6709", "E7000", "E7062", "E7460", "E7123", "E7147", "E7255", "E7275", "E8241", "E6988", "E8256", "E8264", "E8265", "E8231", "E8271", "E8275", "E8420", "E8283", "E8284", "E6008", "E8422", "E8296", "E8297", "E8300", "E8235", "E8306", "E8310", "E8236", "E8311", "E8314", "E8239", "E8240", "E8323", "E8242", "E8325", "E8326", "E8222", "E8430", "E6042", "E8335", "E8343", "E6074", "E8351", "E8353", "E8354", "E7296", "E8365", "E8374", "E8376", "E8378", "E8412", "E8387", "E8389", "E6243", "E7306", "E7418", "E8312", "E8313", "E8334", "E8337", "E8357", "E8366", "E8411", "E8388", "E8395", "E7014", "E7081", "E8243", "E8245", "E7033", "E100000", "E8266", "E6897", "E6898", "E5837", "E6907", "E7438", "E6910", "E6913", "E6914", "E6918", "E6919", "E8214", "E6924", "E8424", "E6926", "E6928", "E6933", "E7520", "E7521", "E6936", "E7522", "E6937", "E6939", "E6900", "E6901", "E6908", "E6009", "E6915", "E6917", "E6920", "E6922", "E6923", "E6927", "E6929", "E6930", "E6940", "E6942", "E6943", "E7518", "E6946", "E8213", "E6951", "E6958", "E7346", "E7064", "E7094", "E7424", "E7231", "E7282", "E7477" ], "rows": 199, "table": true, "tojson": true }, { "name": "K_hapmap", "title": "Marker-based relatedness matrices for 3 populations of Arabidopsis thaliana.", "object": "K_hapmap", "file": "K_hapmap.rda", "class": [ "matrix", "array" ], "fields": [], "rows": 350, "table": true, "tojson": true }, { "name": "K_swedish", "title": "Marker-based relatedness matrices for 3 populations of Arabidopsis thaliana.", "object": "K_swedish", "file": "K_swedish.rda", "class": [ "matrix", "array" ], "fields": [], "rows": 304, "table": true, "tojson": true }, { "name": "LA_H", "title": "_Arabidopsis_ leaf area data for the hapmap and Swedish regmap population.", "object": "LA_H", "file": "LA_H.rda", "class": [ "data.frame" ], "fields": [ "genotype", "replicate", "x", "y", "rep1", "rep2", "rep3", "x1", "x2", "y1", "y2", "y3", "LA13_H" ], "rows": 1170, "table": true, "tojson": true }, { "name": "LA_S", "title": "_Arabidopsis_ leaf area data for the hapmap and Swedish regmap population.", "object": "LA_S", "file": "LA_S.rda", "class": [ "data.frame" ], "fields": [ "genotype", "replicate", "x", "y", "rep1", "rep2", "rep3", "x1", "x2", "y1", "y2", "y3", "LA13_S" ], "rows": 970, "table": true, "tojson": true }, { "name": "LD", "title": "Flowering time data taken from Atwell _et al._ (2010).", "object": "LD", "file": "LD.rda", "class": [ "data.frame" ], "fields": [ "genotype", "LD", "replicate", "rep1", "rep2", "rep3", "rep4", "rep5" ], "rows": 914, "table": true, "tojson": true }, { "name": "LDV", "title": "Flowering time data taken from Atwell _et al._ (2010).", "object": "LDV", "file": "LDV.rda", "class": [ "data.frame" ], "fields": [ "genotype", "LDV", "replicate", "rep1", "rep2", "rep3", "rep4", "rep5" ], "rows": 879, "table": true, "tojson": true }, { "name": "means_LD", "title": "Flowering time from Atwell _et al._ (2010): accession means.", "object": "means_LD", "file": "means_LD.rda", "class": [ "asremlPredict", "data.frame" ], "fields": [ "genotype", "LD" ], "rows": 167, "table": true, "tojson": true }, { "name": "means_LDV", "title": "Flowering time from Atwell _et al._ (2010): accession means.", "object": "means_LDV", "file": "means_LDV.rda", "class": [ "asremlPredict", "data.frame" ], "fields": [ "genotype", "LDV" ], "rows": 168, "table": true, "tojson": true }, { "name": "R_matrix_LD", "title": "Covariance matrix of the accession means for flowering time.", "object": "R_matrix_LD", "file": "R_matrix_LD.rda", "class": [ "matrix", "array" ], "fields": [ "E5837", "E6008", "E6009", "E6016", "E6040", "E6042", "E6043", "E6046", "E6064", "E6074", "E6243", "E6709", "E6897", "E6898", "E6899", "E6900", "E6901", "E6903", "E6904", "E6905", "E6906", "E6907", "E6908", "E6909", "E6910", "E6911", "E6913", "E6914", "E6915", "E6916", "E6917", "E6918", "E6919", "E6920", "E6921", "E6922", "E6923", "E6924", "E6926", "E6927", "E6928", "E6929", "E6930", "E6931", "E6932", "E6933", "E6936", "E6937", "E6939", "E6940", "E6942", "E6943", "E6944", "E6945", "E6946", "E6951", "E6956", "E6957", "E6958", "E6959", "E6960", "E6961", "E6962", "E6963", "E6964", "E6965", "E6966", "E6967", "E6968", "E6969", "E6970", "E6971", "E6972", "E6973", "E6974", "E6975", "E6976", "E6977", "E6978", "E6979", "E6980", "E6981", "E6982", "E6983", "E6984", "E6985", "E6988", "E7081", "E7296", "E7323", "E7438", "E7461", "E7514", "E7515", "E7516", "E7517", "E7518", "E7519", "E7520", "E7521", "E7522", "E7523", "E7524", "E7525", "E7526", "E8213", "E8214", "E8215", "E8222", "E8230", "E8231", "E8233", "E8235", "E8236", "E8237", "E8239", "E8240", "E8242", "E8243", "E8245", "E8247", "E8249", "E8254", "E8256", "E8258", "E8259", "E8264", "E8265", "E8266", "E8270", "E8271", "E8274", "E8275", "E8283", "E8284", "E8285", "E8290", "E8296", "E8297", "E8300", "E8306", "E8310", "E8311", "E8312", "E8313", "E8314", "E8325", "E8326", "E8329", "E8334", "E8335", "E8337", "E8343", "E8351", "E8353", "E8354", "E8357", "E8365", "E8369", "E8374", "E8376", "E8378", "E8387", "E8389", "E8395", "E8411", "E8424" ], "rows": 167, "table": true, "tojson": true }, { "name": "R_matrix_LDV", "title": "Covariance matrix of the accession means for flowering time.", "object": "R_matrix_LDV", "file": "R_matrix_LDV.rda", "class": [ "matrix", "array" ], "fields": [ "E5837", "E6008", "E6009", "E6016", "E6040", "E6042", "E6043", "E6046", "E6064", "E6074", "E6243", "E6709", "E6897", "E6898", "E6899", "E6900", "E6901", "E6903", "E6904", "E6905", "E6906", "E6907", "E6908", "E6909", "E6910", "E6911", "E6913", "E6914", "E6915", "E6916", "E6917", "E6918", "E6919", "E6920", "E6921", "E6922", "E6923", "E6924", "E6926", "E6927", "E6928", "E6929", "E6930", "E6931", "E6932", "E6933", "E6936", "E6937", "E6939", "E6940", "E6942", "E6943", "E6944", "E6945", "E6946", "E6951", "E6956", "E6957", "E6958", "E6959", "E6960", "E6961", "E6962", "E6963", "E6964", "E6965", "E6966", "E6967", "E6968", "E6969", "E6970", "E6971", "E6972", "E6973", "E6974", "E6975", "E6976", "E6977", "E6978", "E6979", "E6980", "E6981", "E6982", "E6983", "E6984", "E6985", "E6988", "E7081", "E7296", "E7323", "E7438", "E7461", "E7514", "E7515", "E7516", "E7518", "E7519", "E7520", "E7521", "E7522", "E7523", "E7524", "E7525", "E7526", "E8213", "E8214", "E8215", "E8222", "E8230", "E8233", "E8235", "E8236", "E8237", "E8239", "E8240", "E8241", "E8242", "E8243", "E8245", "E8247", "E8249", "E8254", "E8256", "E8258", "E8259", "E8264", "E8265", "E8266", "E8270", "E8271", "E8274", "E8275", "E8283", "E8284", "E8285", "E8290", "E8296", "E8297", "E8300", "E8306", "E8310", "E8311", "E8312", "E8313", "E8314", "E8323", "E8325", "E8326", "E8329", "E8334", "E8335", "E8337", "E8343", "E8351", "E8353", "E8354", "E8357", "E8365", "E8369", "E8374", "E8376", "E8378", "E8387", "E8388", "E8389", "E8395", "E8411", "E8424" ], "rows": 168, "table": true, "tojson": true } ], "_help": [ { "page": "heritability-package", "title": "Marker-Based Estimation of Heritability Using Individual Plant or Plot Data.", "topics": [ "heritability-package", "heritability" ] }, { "page": "BT_LW_H", "title": "Bolting time and leaf width for the Arabidopsis hapmap population.", "topics": [ "BT_LW_H" ] }, { "page": "floweringTime", "title": "Flowering time data taken from Atwell _et al._ (2010).", "topics": [ "floweringTime", "LD", "LDV" ] }, { "page": "K_arabidopsis", "title": "Marker-based relatedness matrices for 3 populations of Arabidopsis thaliana.", "topics": [ "K_atwell", "K_hapmap", "K_swedish" ] }, { "page": "leafArea", "title": "_Arabidopsis_ leaf area data for the hapmap and Swedish regmap population.", "topics": [ "LA_H", "LA_S", "leafArea" ] }, { "page": "marker_h2", "title": "Compute a marker-based estimate of heritability, given phenotypic observations at individual plant or plot level.", "topics": [ "marker_h2" ] }, { "page": "marker_h2_means", "title": "Compute a marker-based estimate of heritability, given genotypic means.", "topics": [ "marker_h2_means" ] }, { "page": "means_floweringTime", "title": "Flowering time from Atwell _et al._ (2010): accession means.", "topics": [ "means_floweringTime", "means_LD", "means_LDV" ] }, { "page": "R_matrix", "title": "Covariance matrix of the accession means for flowering time.", "topics": [ "R_matrix", "R_matrix_LD", "R_matrix_LDV" ] }, { "page": "repeatability", "title": "ANOVA-based estimates of repeatability", "topics": [ "repeatability" ] } ], "_rundeps": [ "MASS" ], "_score": 1.934498451243568, "_indexed": true, "_nocasepkg": "heritability", "_universes": [ "bartjanvanrossum" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "1.5", "date": "2026-10-11T15:19:49.000Z", "distro": "resolute", "commit": "28b924ae5717f56e92fa536c00d601b4273d07a2", "fileid": "https://r2.ropensci.org/d7325a932b45cacc0c56eba773b5856a29a47b4e6dbe050128a53df789ee35d2", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/bartjanvanrossum/actions/runs/38150535611" }, { "r": "4.6.1", "os": "linux", "version": "1.5", "date": "2026-10-11T15:19:47.000Z", "distro": "resolute", "commit": "28b924ae5717f56e92fa536c00d601b4273d07a2", "fileid": "https://r2.ropensci.org/ed2db8ba9317b7ec8ef40d90ef29266e704fc3115d9b5ab872b4a82163633a6a", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/bartjanvanrossum/actions/runs/38150535611" }, { "r": "4.5.3", "os": "mac", "version": "1.5", "date": "2026-10-11T15:24:45.000Z", "commit": "28b924ae5717f56e92fa536c00d601b4273d07a2", "fileid": "https://r2.ropensci.org/a340bb1a1005b177ff80d9f5c1db8f2924badd606df5a8a360da8cb0b286a2dc", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/bartjanvanrossum/actions/runs/38150535611" }, { "r": "4.6.1", "os": "mac", "version": "1.5", "date": "2026-10-11T15:24:30.000Z", "commit": "28b924ae5717f56e92fa536c00d601b4273d07a2", "fileid": "https://r2.ropensci.org/53620407dbaaec5fe6f932c26fd738934f2443a282bf140f3ae199ecdab84e25", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/bartjanvanrossum/actions/runs/38150535611" }, { "r": "4.6.0", "os": "wasm", "version": "1.5", "date": "2026-10-11T15:19:47.000Z", "commit": "28b924ae5717f56e92fa536c00d601b4273d07a2", "fileid": "https://r2.ropensci.org/6ed845c459ee41118dd8fe4bbb482498cc8f188fafaa786857dcfb210d4b739e", "status": "success", "buildurl": "https://github.com/r-universe/bartjanvanrossum/actions/runs/38150535611" }, { "r": "4.7.0", "os": "win", "version": "1.5", "date": "2026-10-11T15:19:03.000Z", "commit": "28b924ae5717f56e92fa536c00d601b4273d07a2", "fileid": "https://r2.ropensci.org/7ed2e8121761a0e790cfa188eede2ce8eaabae2333b87f87946dc467dc1dc5a0", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/bartjanvanrossum/actions/runs/38150535611" }, { "r": "4.5.3", "os": "win", "version": "1.5", "date": "2026-10-11T15:19:15.000Z", "commit": "28b924ae5717f56e92fa536c00d601b4273d07a2", "fileid": "https://r2.ropensci.org/6fec61e2965a843645fb309c4cf73befad0e535abc082f3fc24dbb32df0150ea", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/bartjanvanrossum/actions/runs/38150535611" }, { "r": "4.6.1", "os": "win", "version": "1.5", "date": "2026-10-11T15:19:04.000Z", "commit": "28b924ae5717f56e92fa536c00d601b4273d07a2", "fileid": "https://r2.ropensci.org/7c634191af113080e15a8090a36b78d46e76b8ab33425d92b7f809aae51d622c", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/bartjanvanrossum/actions/runs/38150535611" } ] }