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A detailed presentation of the 'pedsuite' is given in\nthe book 'Pedigree Analysis in R' (Vigeland, 2021,\nISBN:9780128244302).", "License": "GPL-3", "URL": "https://github.com/magnusdv/pedtools,\nhttps://magnusdv.github.io/pedsuite/", "VignetteBuilder": "knitr", "Encoding": "UTF-8", "Language": "en-GB", "Roxygen": "list(markdown = TRUE)", "RoxygenNote": "7.3.3", "Repository": "https://magnusdv.r-universe.dev", "Date/Publication": "2026-04-18 14:07:46 UTC", "RemoteUrl": "https://github.com/magnusdv/pedtools", "RemoteRef": "HEAD", "RemoteSha": "e74373a7d313d31926ca03d0f63c7bc718edb439", "NeedsCompilation": "no", "Packaged": { "Date": "2026-05-17 12:09:39 UTC", "User": "root" }, "Author": "Magnus Dehli Vigeland [aut, cre] (ORCID:\n)", "Maintainer": "Magnus Dehli Vigeland ", "MD5sum": "94328d8fd28eb595bcd7f6e8eaf2d707", "_user": "magnusdv", "_type": "src", "_file": "pedtools_2.10.0.tar.gz", "_fileid": "9b9fd4573abd7df128c319f45868715c29a5f9fe495adf757652806a42a3c708", "_filesize": 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"addDaughter", "addMarker", "addMarkers", "addParents", "addSibling", "addSon", "afreq", "afreq<-", "alleles", "allowsMutations", "ancestors", "ancestralPed", "as_kinship2_pedigree", "as.ped", "avuncularPed", "branch", "breakLoops", "children", "chrom", "chrom<-", "commonAncestors", "commonDescendants", "connectedComponents", "cousinPed", "descendants", "descentPaths", "distributeMarkers", "doubleCousins", "doubleFirstCousins", "drawPed", "emptyMarker", "expectedHeterozygosity", "expectedHomozygosity", "extractSingletons", "famid", "famid<-", "father", "females", "findLoopBreakers", "findLoopBreakers2", "founderInbreeding", "founderInbreeding<-", "founders", "foundersFirst", "fullSibMating", "generations", "genotype", "genotype<-", "getAlleles", "getComponent", "getFreqDatabase", "getGenotypes", "getLocusAttributes", "getMap", "getMarkers", "getSex", "grandparents", "halfCousinPed", "halfSibPed", "halfSibStack", "halfSibTriangle", "harmoniseMarkers", "hasCommonAncestor", 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"page": "distributeMarkers", "title": "Distribute markers evenly along a set of chromosomes", "topics": [ "distributeMarkers" ] }, { "page": "expectedHomozygosity", "title": "Expected homozygosity and heterozygosity", "topics": [ "expectedHeterozygosity", "expectedHomozygosity" ] }, { "page": "extractSingletons", "title": "Extract singletons from pedigree", "topics": [ "extractSingletons" ] }, { "page": "famid", "title": "Family identifier", "topics": [ "famid", "famid.ped", "famid<-", "famid<-.ped" ] }, { "page": "founderInbreeding", "title": "Inbreeding coefficients of founders", "topics": [ "founderInbreeding", "founderInbreeding<-", "setFounderInbreeding" ] }, { "page": "freqDatabase", "title": "Allele frequency database", "topics": [ "freqDatabase", "getFreqDatabase", "readFreqDatabase", "setFreqDatabase", "writeFreqDatabase" ] }, { "page": "getAlleles", "title": "Allele matrix manipulation", "topics": [ "getAlleles", "removeGenotypes", "setAlleles" ] }, { "page": "getComponent", "title": "Pedigree component", "topics": [ "getComponent" ] }, { "page": "getGenotypes", "title": "Genotype matrix", "topics": [ "getGenotypes" ] }, { "page": "getMap", "title": "Tabulate marker positions", "topics": [ "getMap", "hasLinkedMarkers", "setMap" ] }, { "page": "getSex", "title": "Get or set the sex of pedigree members", "topics": [ "getSex", "setSex", "swapSex" ] }, { "page": "harmoniseMarkers", "title": "Harmonise markers across components in a ped list", "topics": [ "harmoniseMarkers" ] }, { "page": "inbreedingLoops", "title": "Pedigree loops", "topics": [ "breakLoops", "findLoopBreakers", "findLoopBreakers2", "inbreedingLoops", "tieLoops" ] }, { "page": "is.marker", "title": "Test if something is a marker", "topics": [ "is.marker", "is.markerList" ] }, { "page": "is.ped", "title": "Is an object a 'ped' object?", "topics": [ "is.ped", "is.pedList", "is.singleton" ] }, { "page": "isHomozygous", "title": "Find homozygous genotypes", "topics": [ "isHomozygous" ] }, { "page": "locusAttributes", "title": "Get or set locus attributes", "topics": [ "getLocusAttributes", "locusAttributes", "setLocusAttributes" ] }, { "page": "marker", "title": "Marker objects", "topics": [ "addMarker", "marker" ] }, { "page": "marker_attach", "title": "Attach markers to pedigrees", "topics": [ "addMarkers", "marker_attach", "setMarkers" ] }, { "page": "marker_getattr", "title": "Get marker attributes", "topics": [ "afreq", "afreq.list", "afreq.marker", "afreq.ped", "alleles", "alleles.list", "alleles.marker", "alleles.ped", "chrom", "chrom.list", "chrom.marker", "chrom.ped", "genotype", "genotype.marker", "genotype.ped", "marker_getattr", "mutmod", "mutmod.list", "mutmod.marker", "mutmod.ped", "name", "name.list", "name.marker", "name.ped", "posMb", "posMb.marker", "posMb.ped" ] }, { "page": "marker_inplace", "title": "Set marker attributes", "topics": [ "afreq<-", "afreq<-.list", "afreq<-.marker", "afreq<-.ped", "chrom<-", "chrom<-.list", "chrom<-.marker", "chrom<-.ped", "genotype<-", "genotype<-.marker", "genotype<-.ped", "marker_inplace", "mutmod<-", "mutmod<-.list", "mutmod<-.marker", "mutmod<-.ped", "name<-", "name<-.list", "name<-.marker", "name<-.ped", "posMb<-", "posMb<-.marker", "posMb<-.ped" ] }, { "page": "marker_prop", "title": "Marker properties", "topics": [ "allowsMutations", "allowsMutations.default", "allowsMutations.list", "allowsMutations.marker", "allowsMutations.ped", "emptyMarker", "emptyMarker.default", "emptyMarker.list", "emptyMarker.marker", "emptyMarker.ped", "isXmarker", "isXmarker.default", "isXmarker.list", "isXmarker.marker", "isXmarker.ped", "marker_prop", "nAlleles", "nAlleles.default", "nAlleles.list", "nAlleles.marker", "nAlleles.ped", "nTyped", "nTyped.default", "nTyped.list", "nTyped.marker", "nTyped.ped" ] }, { "page": "marker_select", "title": "Select or remove attached markers", "topics": [ "getMarkers", "marker_select", "removeMarkers", "selectMarkers", "whichMarkers" ] }, { "page": "marker_setattr", "title": 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"ped_subgroups", "piblings", "siblings", "spouses", "typedMembers", "unrelated", "untypedMembers" ] }, { "page": "ped_utils", "title": "Pedigree utilities", "topics": [ "generations", "hasCommonAncestor", "hasInbredFounders", "hasSelfing", "hasUnbrokenLoops", "nChildren", "pedsize", "ped_utils", "peelingOrder", "subnucs" ] }, { "page": "plot.ped", "title": "Plot pedigree", "topics": [ "drawPed", "plot.list", "plot.ped", "plot.pedList" ] }, { "page": "plotmethods", "title": "Internal plot methods", "topics": [ ".annotatePed", ".drawPed", ".pedAlignment", ".pedAnnotation", ".pedScaling", "plotmethods" ] }, { "page": "plotPedList", "title": "Plot a collection of pedigrees.", "topics": [ "plotPedList" ] }, { "page": "print.nucleus", "title": "S3 methods", "topics": [ "print.nucleus" ] }, { "page": "print.ped", "title": "Printing pedigrees", "topics": [ "print.ped" ] }, { "page": "randomPed", "title": "Random pedigree", "topics": [ "randomPed" ] }, { "page": "readPed", "title": "Read a 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