No datasets match
  1. 1.
    adephylo::carni19
    Phylogeny and quantative trait of carnivora
  2. 2.
    adephylo::carni70
    Phylogeny and quantitative traits of carnivora
  3. 3.
    adephylo::lizards
    Phylogeny and quantitative traits of lizards
  4. 4.
    adephylo::maples
    Phylogeny and quantitative traits of flowers
  5. 5.
    adephylo::mjrochet
    Phylogeny and quantitative traits of teleos fishes
  6. 6.
    adephylo::palm
    Phylogenetic and quantitative traits of amazonian palm trees
  7. 7.
    adephylo::procella
    Phylogeny and quantitative traits of birds
  8. 8.
    adephylo::tithonia
    Phylogeny and quantitative traits of flowers
  9. 9.
    adephylo::ungulates
    Phylogeny and quantitative traits of ungulates.
  10. 10.
    AnnotationBustR::cpDNAterms
    Chloroplast DNA (cpDNA) Search Terms
  11. 11.
    AnnotationBustR::mtDNAterms
    Mitochondrial DNA Search Terms for Animals
  12. 12.
    AnnotationBustR::mtDNAtermsPlants
    Mitochondrial DNA Search Terms for Plants
  13. 13.
    AnnotationBustR::rDNAterms
    Ribosomal DNA (rDNA) Search Terms
  14. 14.
    ape::bird.families
    Phylogeny of the Families of Birds From Sibley and Ahlquist
  15. 15.
    ape::bird.orders
    Phylogeny of the Orders of Birds From Sibley and Ahlquist
  16. 16.
    ape::carnivora
    Carnivora body sizes and life history traits
  17. 17.
    ape::chiroptera
    Bat Phylogeny
  18. 18.
    ape::gopher.D
    Test of host-parasite coevolution
  19. 19.
    ape::hivtree.newick
    Phylogenetic Tree of 193 HIV-1 Sequences
  20. 20.
    ape::hivtree.table
    Phylogenetic Tree of 193 HIV-1 Sequences
  21. 21.
    ape::HP.links
    Test of host-parasite coevolution
    matrix|15 x 17
  22. 22.
    ape::lice.D
    Test of host-parasite coevolution
  23. 23.
    ape::lmorigin.ex1
    Multiple regression through the origin
  24. 24.
    ape::lmorigin.ex2
    Multiple regression through the origin
  25. 25.
    ape::mat3
    Three Matrices
  26. 26.
    ape::mat5M3ID
    Five Trees
  27. 27.
    ape::mat5Mrand
    Five Independent Trees
  28. 28.
    ape::woodmouse
    Cytochrome b Gene Sequences of Woodmice
    DNAbin|15 x 0
  29. 29.
    aphid::casino
    Dishonest casino.
  30. 30.
    aphid::globins
    Globin protein alignment.
  31. 31.
    aphid::substitution
    Substitution matrices.
  32. 32.
    aphylo::fakeexperiment
    Fake Experimental Data
  33. 33.
    aphylo::faketree
    Fake Phylogenetic Tree
  34. 34.
    apTreeshape::carnivora.treeshape
    Phylogeny of carnivores.
    treeshape
  35. 35.
    apTreeshape::cytochromc
    Phylogeny of the cytochrome C family.
    treeshape
  36. 36.
    apTreeshape::hivtree.treeshape
    Phylogenetic Tree of 193 HIV-1 Sequences
    treeshape
  37. 37.
    apTreeshape::primates
    Phylogeny of the primates.
    treeshape
  38. 38.
    apTreeshape::rhodopsin
    Phylogeny of rhodopsin proteins.
    treeshape
  39. 39.
    apTreeshape::universal.treeshape
    Universal phylogenetic tree of life
    treeshape
  40. 40.
    BMhyb::cichlid
    Cichlid dataset
  41. 41.
    BMhyb::nicotiana
    Nicotiana dataset
  42. 42.
    bold::sequences
    List of 3 nucleotide sequences to use in examples for the 'bold_identify' function
  43. 43.
    bppr::hominids
    A BPP A00 MCMC sample for an hominid phylogeny
  44. 44.
    bppr::microcebus
    A BPP A00 MCMC sample for a mouse lemur phylogeny
  45. 45.
    brms::epilepsy
    Epileptic seizure counts
  46. 46.
    brms::inhaler
    Clarity of inhaler instructions
  47. 47.
    brms::kidney
    Infections in kidney patients
  48. 48.
    brms::loss
    Cumulative Insurance Loss Payments
  49. 49.
    brranching::phylomatic_trees
    Phylogenies to use with phylomatic
  50. 50.
    brranching::tpl
    Lookup-table for family, genus, and species names for ThePlantList gymnosperms
  51. 51.
    Claddis::day_2016
    Character-taxon matrix from Day et al. 2016
    cladisticMatrix
  52. 52.
    Claddis::gauthier_1986
    Character-taxon matrix from Gauthier 1986
    cladisticMatrix
  53. 53.
    Claddis::michaux_1989
    Character-taxon matrix from Michaux 1989
    cladisticMatrix
  54. 54.
    closesamples::ORCID_TOKEN
  55. 55.
    closesamples::r
  56. 56.
    corHMM::primates
    Example datasets
  57. 57.
    corHMM::primates.paint
    Example datasets
  58. 58.
    corHMM::rayDISC.example
    Example datasets
  59. 59.
    DAMOCLES::NWPrimates_data
    Dated phylogenetic tree of the New World Primates in nexus format and presence-absence matrix for species in Manu
  60. 60.
    datelife::birds_and_cats
    A multiPhylo object with trees resulting from a datelife search of some birds and cats species
    multiPhylo
  61. 61.
    datelife::contributor_cache
    Information on contributors, authors, study ids and clades from studies with chronograms in Open Tree of Life (Open Tree)
  62. 62.
    datelife::felid_gdr_phylo_all
    datelifeSummary of a datelifeResult object of all Felidae species.
  63. 63.
    datelife::felid_sdm
    SDM tree of a datelifeResult object of all Felidae species.
  64. 64.
    datelife::opentree_chronograms
    Chronogram database
  65. 65.
    datelife::plant_bold_otol_tree
    Some plants chronogram
  66. 66.
    datelife::problems
    Problematic chronograms from Open Tree of Life.
  67. 67.
    datelife::some_ants_datelife_result
    datelifeResult object of some ants
    datelifeResult
  68. 68.
    datelife::subset2_search
    A list with datelifeQuery and datelifeResult objects from a search of taxon names from subset2_taxa
  69. 69.
    datelife::subset2_taxa
    Long list of >2.7k virus, bacteria, plant and animal taxon names
  70. 70.
    datelife::threebirds_dr
    'datelifeResult' object of three birds "Rhea americana", "Pterocnemia pennata", and "Struthio camelus"
    datelifeResult
  71. 71.
    datelife::treebase_cache
    Information on contributors, authors, study ids and clades from studies with chronograms in Open tree of Life
  72. 72.
    deeptime::eons
    Eon data from the International Commission on Stratigraphy (v2024/12)
  73. 73.
    deeptime::epochs
    Epoch data from the International Commission on Stratigraphy (v2024/12)
  74. 74.
    deeptime::eras
    Era data from the International Commission on Stratigraphy (v2024/12)
  75. 75.
    deeptime::fgdc_names
    Pattern numbers and names for patterns from the FGDC Digital Cartographic Standard for Geologic Map Symbolization
  76. 76.
    deeptime::periods
    Period data from the International Commission on Stratigraphy (v2024/12)
  77. 77.
    deeptime::stages
    Stage data from the International Commission on Stratigraphy (v2024/12)
  78. 78.
    dendextend::khan
    Microarray gene expression dataset from Khan et al., 2001. Subset of 306 genes.
  79. 79.
    dietr::Casaux1998
    Casaux1998
  80. 80.
    dietr::CortesPreyVals
    CortesPreyVals
  81. 81.
    dietr::FishBasePreyVals
    FishBasePreyVals
  82. 82.
    dietr::Herichthys
    Herichthys
  83. 83.
    dietr::Horn1982
    Horn1982
  84. 84.
    dietr::SebastesStomachs
    SebastesStomachs
  85. 85.
    dispRity::BeckLee_ages
    Beck and Lee 2014 datasets
  86. 86.
    dispRity::BeckLee_disparity
    BeckLee_disparity
    dispRity
  87. 87.
    dispRity::BeckLee_mat50
    Beck and Lee 2014 datasets
  88. 88.
    dispRity::BeckLee_mat99
    Beck and Lee 2014 datasets
  89. 89.
    dispRity::BeckLee_tree
    Beck and Lee 2014 datasets
  90. 90.
    dispRity::charadriiformes
    Charadriiformes
  91. 91.
    dispRity::demo_data
    Demo datasets
  92. 92.
    dispRity::disparity
    disparity
    dispRity
  93. 93.
    entropart::EightSpAbundance
    Abundances of 8 species to run examples.
  94. 94.
    entropart::EightSpTree
    Functional tree with 8 species.
    phylog
  95. 95.
    entropart::Paracou618.dist
    Functional distances between pairs of species of Paracou field station plots 6 and 18, two 1-ha plots inventoried by the Bridge project.
  96. 96.
    entropart::Paracou618.Functional
    Functional tree of species of Paracou field station plots 6 and 18, two 1-ha plots inventoried by the Bridge project.
    hclust
  97. 97.
    entropart::Paracou618.MC
    Paracou field station plots 6 and 18, two 1-ha plots inventoried by the Bridge project.
    MetaCommunity
  98. 98.
    entropart::Paracou618.Taxonomy
    Taxonomy (Family - Genus - Species) of Paracou field station plots 6 and 18, two 1-ha plots inventoried by the Bridge project.
  99. 99.
    epm::tamiasEPM
    Eco Phylo Mapper datasets
    epmGrid
  100. 100.
    epm::tamiasPolyList
    Eco Phylo Mapper datasets
  101. 101.
    epm::tamiasTraits
    Eco Phylo Mapper datasets
  102. 102.
    epm::tamiasTree
    Eco Phylo Mapper datasets
  103. 103.
    epm::tamiasTreeSet
    Eco Phylo Mapper datasets
    multiPhylo
  104. 104.
    evobiR::hym.tree
    Hymenoptera phylogenetic tree
  105. 105.
    evobiR::mite.trait
    Phenotype data for mites
  106. 106.
    evobiR::trees
    10 phylogenetic trees for mites
    multiPhylo
  107. 107.
    EvoPhylo::characters
    A morphological phylogenetic data matrix
    matrix|178 x 43
  108. 108.
    EvoPhylo::post_trees
    Multiple phylogenetic clock trees
    treedataList
  109. 109.
    EvoPhylo::posterior1p
    Posterior parameter samples (single clock)
  110. 110.
    EvoPhylo::posterior3p
    Posterior parameter samples (3 clock partions)
  111. 111.
    EvoPhylo::RateTable_Means_1p_Clades
    Mean clock rates by node and clade (single clock)
  112. 112.
    EvoPhylo::RateTable_Means_3p_Clades
    Mean clock rates by node and clade (3 clock partitions)
  113. 113.
    EvoPhylo::tree_clock1
    BEAST2 phylogenetic tree with clock rates from partition 1
    treedata
  114. 114.
    EvoPhylo::tree_clock2
    BEAST2 phylogenetic tree with clock rates from partition 2
    treedata
  115. 115.
    EvoPhylo::tree1p
    Phylogenetic tree with a single clock partition
    treedata
  116. 116.
    EvoPhylo::tree3p
    Phylogenetic tree with 3 clock partitions
    treedata
  117. 117.
    extendedSurface::echinoid_data
    Comparative dataset used to explore the macroevolution of echinoid body size.
  118. 118.
    FishPhyloMaker::neotropical_comm
    Abundance of stream fish species in Parana and Paraguay streams
  119. 119.
    FishPhyloMaker::spp_afrotropic
    List of fish species with occurrence in Afrotropical ecoregion
  120. 120.
    FishPhyloMaker::taxon_data_PhyloMaker
    Data frame with species names needed to assemble the phylogenetic tree
  121. 121.
    geiger::amphibia
    example datasets
  122. 122.
    geiger::caniformia
    example datasets
  123. 123.
    geiger::carnivores
    example datasets
  124. 124.
    geiger::caudata
    example datasets
  125. 125.
    geiger::chelonia
    example datasets
  126. 126.
    geiger::geospiza
    example datasets
  127. 127.
    geiger::primates
    example datasets
  128. 128.
    geiger::whales
    example datasets
  129. 129.
    geomorph::hummingbirds
    Landmark data from hummingbird bills (includes sliding semilandmarks on curves)
  130. 130.
    geomorph::larvalMorph
    Head and tail shapes of larval salamanders
  131. 131.
    geomorph::lizards
    Dorsal head shape data of lizards
    geomorph.data.frame
  132. 132.
    geomorph::mosquito
    Landmarks on mosquito wings
  133. 133.
    geomorph::plethodon
    Landmark data from Plethodon salamander heads
  134. 134.
    geomorph::plethShapeFood
    Head shape and food use data from Plethodon salamanders
  135. 135.
    geomorph::plethspecies
    Head shape and phylogenetic relationships for several Plethodon salamander species
  136. 136.
    geomorph::pupfish
    Landmarks on pupfish
  137. 137.
    geomorph::pupfish.ws
    Landmarks on pupfish
    geomorph.data.frame
  138. 138.
    geomorph::ratland
    Landmark data from dataset rat
  139. 139.
    geomorph::scallopPLY
    3D scan of a scallop shell from a .ply file in mesh3d format
  140. 140.
    geomorph::scallops
    Landmark data from scallop shells
  141. 141.
    hilldiv::bat.diet.hierarchy
    Bat diet hierarchy
  142. 142.
    hilldiv::bat.diet.otutable
    Bat diet OTU table
  143. 143.
    hilldiv::bat.diet.tree
    Bat diet OTU tree
  144. 144.
    idendr0::hca5000
    idendro demo data
  145. 145.
    ips::ips.16S
    Bark Beetle 16S Sequences
    DNAbin|42 x 0
  146. 146.
    ips::ips.28S
    Bark Beetle 28S Sequences
    DNAbin|28 x 0
  147. 147.
    ips::ips.cox1
    Bark Beetle COX1 Sequences
    DNAbin|26 x 0
  148. 148.
    ips::ips.tree
    Ips Phylogeny
  149. 149.
    ips::log_list
    Internal IPS Functions
  150. 150.
    ips::operator_list
    Internal IPS Functions
  151. 151.
    laser::agamids
    Ultrametric Phylogeny of Australian Agamid Lizards
  152. 152.
    laser::plethodon
    plethodon
  153. 153.
    laser::rtrees5
    Random Phylogenetic Trees
  154. 154.
    laser::rtrees50
    Random Phylogenetic Trees
  155. 155.
    laser::warblers
    Branching times from phylogeny of North American Dendroica warblers
  156. 156.
    mcmc3r::A
    A matrix
  157. 157.
    mcmc3r::C
    29 3D landmarks from the skulls of 19 carnivoran specimens after Procrustes analysis
    matrix|19 x 87
  158. 158.
    mcmc3r::C.arr.unal
    29 3D landmarks from the skulls of 19 carnivoran specimens before Procrustes analysis
  159. 159.
    mcmc3r::C.mat.unal
    29 3D landmarks from the skulls of 19 carnivoran specimens before Procrustes analysis
    matrix|19 x 87
  160. 160.
    mcmc3r::C.PS
    Object of class procSym output by Morpho after PA
    symproc
  161. 161.
    mcmc3r::carnivores
    Carnivores dataset
  162. 162.
    mcmc3r::carnivores19x29.raw
    29 3D landmarks from the skulls of 19 carnivoran specimens
  163. 163.
    mcmc3r::hominids
    A BPP A00 MCMC sample for an hominid phylogeny
  164. 164.
    mcmc3r::microcebus
    A BPP A00 MCMC sample for a mouse lemur phylogeny
  165. 165.
    mcmc3r::R.sh
    Estimated shrinkage correlation matrix
    matrix|87 x 87
  166. 166.
    mcmc3r::sim.R
    Correlation matrix for simulations
    matrix|100 x 0
  167. 167.
    mcmc3r::sim.tree
    Simulated 8-species tree
  168. 168.
    mcmc3r::V
    29 3D landmarks from the skulls of 19 carnivoran specimens after Procrustes analysis
    matrix|21 x 87
  169. 169.
    mcmc3r::V.arr.unal
    29 3D landmarks from the skulls of 21 Vulpes vulpes specimens before Procrustes analysis
  170. 170.
    mcmc3r::V.mat.unal
    29 3D landmarks from the skulls of 19 carnivoran specimens before Procrustes analysis
    matrix|21 x 87
  171. 171.
    mcmc3r::V.PS.nov1
    Object of class array output by Morpho after PA
  172. 172.
    mcmc3r::var.foxes
    Vector with the population variance of Vulpes vulpes
  173. 173.
    mcmc3r::vulpes21x29.raw
    29 3D landmarks from the skulls of 21 Vulpes vulpes specimens
  174. 174.
    MCMCglmm::ABPvirus
    Data on Acute Bee Paralysis Virus Infections in Bumblebees from Pascall et al. (2018).
  175. 175.
    MCMCglmm::BTdata
    Blue Tit Data for a Quantitative Genetic Experiment
  176. 176.
    MCMCglmm::BTped
    Blue Tit Pedigree
  177. 177.
    MCMCglmm::FullGrumpy
    Full Grumpy Scores of Academics
  178. 178.
    MCMCglmm::Grumpy
    Grumpy Scores of Academics
  179. 179.
    MCMCglmm::PlodiaPO
    Phenoloxidase measures on caterpillars of the Indian meal moth.
  180. 180.
    MCMCglmm::PlodiaR
    Resistance of Indian meal moth caterpillars to the granulosis virus PiGV.
  181. 181.
    MCMCglmm::PlodiaRB
    Resistance (as a binary trait) of Indian meal moth caterpillars to the granulosis virus PiGV.
  182. 182.
    MCMCglmm::sigma
    Infection Data for Sigma Virus in _Drosophila melanogaster_
  183. 183.
    MCMCglmm::SShorns
    Horn type and genders of Soay Sheep
  184. 184.
    MCMCglmm::tufted_puffin
    Diet composition of Tufted Puffin
  185. 185.
    MonoPhy::Ericacsubfams
    Example dataset for the package MonoPhy.
  186. 186.
    MonoPhy::Ericactree
    Example dataset for the package MonoPhy.
  187. 187.
    MonoPhy::Ericactribes
    Example dataset for the package MonoPhy.
  188. 188.
    mvMORPH::phyllostomid
    Phylogeny and trait data for a sample of Phyllostomid bats
  189. 189.
    nichevol::character_table
    Example of character table for six species
  190. 190.
    nichevol::occ_list
    Example of occurrence records for six species
  191. 191.
    nichevol::par_rec_table
    Example of table with results from parsimony reconstructions
    matrix|11 x 20
  192. 192.
    nichevol::tree
    Example of a phylogenetic tree for six species
  193. 193.
    nichevol::tree_data
    Example of a list containing a tree and a table of characters for six species
  194. 194.
    nichevol::tree5
    Example of a phylogenetic tree for five species
  195. 195.
    ouch::anolis.ssd
    Greater Antillean anolis lizard sexual size dimorphism data
  196. 196.
    ouch::bimac
    Anolis bimaculatus lizard size data
  197. 197.
    ouch::geospiza
    Data on Darwin's finches
  198. 198.
    OUwie::trait
    An example dataset
  199. 199.
    OUwie::trait
    An example dataset
  200. 200.
    OUwie::tree
    An example dataset
  201. 201.
    OUwie::tree
    An example dataset
  202. 202.
    paleobuddy::co2
    Jurassic CO2 data
  203. 203.
    paleobuddy::temp
    Cenozoic temperature data
  204. 204.
    paleotree::ammoniteTraitsRaia
    Dated Trees and Trait Data for Ammonites, Ceratopsians and Cervids from Raia et al. 2015
  205. 205.
    paleotree::ammoniteTreeRaia
    Dated Trees and Trait Data for Ammonites, Ceratopsians and Cervids from Raia et al. 2015
  206. 206.
    paleotree::ceratopsianTreeRaia
    Dated Trees and Trait Data for Ammonites, Ceratopsians and Cervids from Raia et al. 2015
  207. 207.
    paleotree::cervidTreeRaia
    Dated Trees and Trait Data for Ammonites, Ceratopsians and Cervids from Raia et al. 2015
  208. 208.
    paleotree::charMatDicrano
    Cladistic Data for Dicranograptid Graptolites from Song and Zhang (2014)
  209. 209.
    paleotree::cladogramDicranoX12
    Cladistic Data for Dicranograptid Graptolites from Song and Zhang (2014)
  210. 210.
    paleotree::cladogramDicranoX13
    Cladistic Data for Dicranograptid Graptolites from Song and Zhang (2014)
  211. 211.
    paleotree::foramAL
    Ancestor-Descendant Relationships for Macroperforate Foraminifera, from Aze et al. (2011)
  212. 212.
    paleotree::foramALb
    Ancestor-Descendant Relationships for Macroperforate Foraminifera, from Aze et al. (2011)
  213. 213.
    paleotree::foramAM
    Ancestor-Descendant Relationships for Macroperforate Foraminifera, from Aze et al. (2011)
  214. 214.
    paleotree::foramAMb
    Ancestor-Descendant Relationships for Macroperforate Foraminifera, from Aze et al. (2011)
  215. 215.
    paleotree::graptCharMatrix
    Morphlogical Character and Range Data for late Ordovician and Early Silurian Graptoloidea
  216. 216.
    paleotree::graptDistMat
    Morphlogical Character and Range Data for late Ordovician and Early Silurian Graptoloidea
    matrix|183 x 183
  217. 217.
    paleotree::graptOccPBDB
    Example Occurrence and Taxonomic Datasets of the Graptolithina from the Paleobiology Database
  218. 218.
    paleotree::graptRanges
    Morphlogical Character and Range Data for late Ordovician and Early Silurian Graptoloidea
  219. 219.
    paleotree::graptTaxaPBDB
    Example Occurrence and Taxonomic Datasets of the Graptolithina from the Paleobiology Database
  220. 220.
    paleotree::graptTimeTree
    Example Occurrence and Taxonomic Datasets of the Graptolithina from the Paleobiology Database
  221. 221.
    paleotree::graptTree
    Example Occurrence and Taxonomic Datasets of the Graptolithina from the Paleobiology Database
  222. 222.
    paleotree::kanto
    Example Species Abundances Tables
    matrix|23 x 53
  223. 223.
    paleotree::retioChar
    Cladogram and Range Data for the Retiolitinae
  224. 224.
    paleotree::retioRanges
    Cladogram and Range Data for the Retiolitinae
  225. 225.
    paleotree::retioTree
    Cladogram and Range Data for the Retiolitinae
  226. 226.
    paleotree::shellSize
    Dated Trees and Trait Data for Ammonites, Ceratopsians and Cervids from Raia et al. 2015
  227. 227.
    paleotree::sutureComplexity
    Dated Trees and Trait Data for Ammonites, Ceratopsians and Cervids from Raia et al. 2015
  228. 228.
    paleoTS::cantius_L
    Time-series of the length of lower first molar for the Cantius lineage
    paleoTS
  229. 229.
    paleoTS::dorsal.spines
    Time-series of dorsal spine data from a fossil stickleback lineage
    paleoTS
  230. 230.
    phangorn::chloroplast
    Chloroplast alignment
  231. 231.
    phangorn::Laurasiatherian
    Laurasiatherian data (AWCMEE)
  232. 232.
    phangorn::mites
    Morphological characters of Mites (Schäffer et al. 2010)
  233. 233.
    phangorn::yeast
    Yeast alignment (Rokas et al.)
  234. 234.
    phrapl::assignFile
    A description for applying phrapl to a test dataset
  235. 235.
    phrapl::migrationArray
    A description for applying phrapl to a test dataset
  236. 236.
    phrapl::migrationArray
    A description for applying phrapl to a test dataset
  237. 237.
    phrapl::migrationArray
    A description for applying phrapl to a test dataset
  238. 238.
    phrapl::migrationArray
    A description for applying phrapl to a test dataset
  239. 239.
    phrapl::migrationArray
    A description for applying phrapl to a test dataset
  240. 240.
    phrapl::migrationArray
    A description for applying phrapl to a test dataset
  241. 241.
    phrapl::migrationArray
    A description for applying phrapl to a test dataset
  242. 242.
    phrapl::migrationArray
    A description for applying phrapl to a test dataset
  243. 243.
    phrapl::migrationArray
    A description for applying phrapl to a test dataset
  244. 244.
    phrapl::migrationArray
    A description for applying phrapl to a test dataset
  245. 245.
    phrapl::popAssignments
    A description for applying phrapl to a test dataset
  246. 246.
    phrapl::trees
    A description for applying phrapl to a test dataset
    multiPhylo
  247. 247.
    phybase::rooted.tree
    An example of rooted trees
  248. 248.
    phybase::sptree
    A species tree
  249. 249.
    phybase::unrooted.tree
    An example of unrooted trees
  250. 250.
    phyclust::.amino.acid
    Standard Codes and ids for Nucleotides, SNPs, Codon, Amino Acid and Genetic Code
  251. 251.
    phyclust::.boundary.method
    Boundary Methods for Population Proportions
  252. 252.
    phyclust::.code.type
    Code Types of Dataset and Substitution Models
  253. 253.
    phyclust::.codon
    Standard Codes and ids for Nucleotides, SNPs, Codon, Amino Acid and Genetic Code
  254. 254.
    phyclust::.Color
    Colors for Identifying Clusters in Plots
  255. 255.
    phyclust::.edist.model
    Evolution Distance Model
  256. 256.
    phyclust::.em.method
    EM Methods and Algorithms
  257. 257.
    phyclust::.EMC
    EM Control
  258. 258.
    phyclust::.genetic.code
    Standard Codes and ids for Nucleotides, SNPs, Codon, Amino Acid and Genetic Code
  259. 259.
    phyclust::.identifier
    Identifiers for Evolution Models
  260. 260.
    phyclust::.init.method
    Initialization Methods for EM Algorithms
  261. 261.
    phyclust::.init.procedure
    Initialization Procedures for EM Algorithms
  262. 262.
    phyclust::.label.method
    Label Method
  263. 263.
    phyclust::.missing.code
    Standard Codes and ids for Nucleotides, SNPs, Codon, Amino Acid and Genetic Code
  264. 264.
    phyclust::.nucleotide
    Standard Codes and ids for Nucleotides, SNPs, Codon, Amino Acid and Genetic Code
  265. 265.
    phyclust::.se.model
    Sequencing Error Model
  266. 266.
    phyclust::.snp
    Standard Codes and ids for Nucleotides, SNPs, Codon, Amino Acid and Genetic Code
  267. 267.
    phyclust::.substitution.model
    Substitution Models for Mutation Processes
  268. 268.
    phyclust::seq.data.gap
    A Toy Dataset in Class seq.data
    seq.data
  269. 269.
    phyclust::seq.data.toy
    A Toy Dataset in Class seq.data
    seq.data
  270. 270.
    phylobase::geospiza
    Data from Darwin's finches
    phylo4d
  271. 271.
    phylobase::geospiza_raw
    Data from Darwin's finches
  272. 272.
    phylobase::owls4
    'Owls' data from ape
    phylo4
  273. 273.
    phyloclim::equ
    Niche overlap for Oxalis enneaphylla and O. lacinita
  274. 274.
    phyloclim::PNO
    _Oxalis_ section _Palmatifoliae_
  275. 275.
    phyloclim::sim
    Niche overlap for Oxalis enneaphylla and O. lacinita
  276. 276.
    phyloclim::sites
    _Oxalis_ section _Palmatifoliae_
  277. 277.
    phyloclim::tree
    _Oxalis_ section _Palmatifoliae_
  278. 278.
    PHYLOGR::GarlandJanis.IC
    Independet contrasts for Garland & Janis data set
  279. 279.
    PHYLOGR::GarlandJanis.Original
    Garland & Janis's 1993 data on mammalian running speed and limb length
  280. 280.
    PHYLOGR::GarlandJanis.varcov
    Phylogenetic variance-covariance matrix for Garland & Janis (1993).
  281. 281.
    PHYLOGR::Lacertid.IC
    Independet contrasts for Bauwens and Diaz-Uriarte (1997) lacertid data set
  282. 282.
    PHYLOGR::Lacertid.Original
    Bauwens and Diaz-Uriarte (1997) lacertid data
  283. 283.
    PHYLOGR::Lacertid.varcov
    Variance-covariance matrix for lacertids from Bauwens and Diaz-uriarte (1997)
  284. 284.
    PHYLOGR::SimulExample
    A simulated data set
  285. 285.
    phylolm::flowerSize
    Flower size of 25 Euphorbiaceae species
  286. 286.
    phylolm::flowerTree
    Phylogenetic tree of 25 Euphorbiaceae species
  287. 287.
    phylolm::guidetree
    Binary population tree within Arabidopsis thaliana
  288. 288.
    phylolm::quartetCF
    Quartet concordance factors across Arabidopsis thaliana
  289. 289.
    phylolm::tomato
    Phylogenetic tree and trait data for 12 wild tomato accessions.
  290. 290.
    phyloregion::africa
    Plants of southern Africa
  291. 291.
    phylosignal::navic
    Phylogeny and pollution sensitivity of diatoms
    phylo4d
  292. 292.
    phylotaR::aotus
    aotus
    Phylota
  293. 293.
    phylotaR::birds
    birds
    TreeMan
  294. 294.
    phylotaR::bromeliads
    bromeliads
    Phylota
  295. 295.
    phylotaR::cycads
    cycads
    Phylota
  296. 296.
    phylotaR::dragonflies
    dragonflies
    Phylota
  297. 297.
    phylotaR::mammals
    mammals
    TreeMan
  298. 298.
    phylotaR::plants
    plants
    TreeMan
  299. 299.
    phylotaR::sturgeons
    sturgeons
    Phylota
  300. 300.
    phylotaR::tardigrades
    tardigrades
    Phylota
  301. 301.
    phylotaR::tinamous
    tinamous
    Phylota
  302. 302.
    phylotaR::yeasts
    yeasts
    Phylota
  303. 303.
    phytools::anole.data
    Phylogenetic datasets
  304. 304.
    phytools::anoletree
    Phylogenetic datasets
    simmap
  305. 305.
    phytools::ant.geog
    Phylogenetic datasets
  306. 306.
    phytools::ant.tree
    Phylogenetic datasets
  307. 307.
    phytools::bat_virus.data
    Phylogenetic datasets
  308. 308.
    phytools::bat.tree
    Phylogenetic datasets
  309. 309.
    phytools::betaCoV.tree
    Phylogenetic datasets
  310. 310.
    phytools::bonyfish.data
    Phylogenetic datasets
  311. 311.
    phytools::bonyfish.tree
    Phylogenetic datasets
  312. 312.
    phytools::butterfly.data
    Phylogenetic datasets
  313. 313.
    phytools::butterfly.tree
    Phylogenetic datasets
  314. 314.
    phytools::cordylid.data
    Phylogenetic datasets
  315. 315.
    phytools::cordylid.tree
    Phylogenetic datasets
  316. 316.
    phytools::darter.tree
    Phylogenetic datasets
  317. 317.
    phytools::eel.data
    Phylogenetic datasets
  318. 318.
    phytools::eel.tree
    Phylogenetic datasets
  319. 319.
    phytools::elapidae.tree
    Phylogenetic datasets
  320. 320.
    phytools::flatworm.data
    Phylogenetic datasets
  321. 321.
    phytools::flatworm.tree
    Phylogenetic datasets
  322. 322.
    phytools::liolaemid.data
    Phylogenetic datasets
  323. 323.
    phytools::liolaemid.tree
    Phylogenetic datasets
  324. 324.
    phytools::mammal.data
    Phylogenetic datasets
  325. 325.
    phytools::mammal.geog
    Phylogenetic datasets
  326. 326.
    phytools::mammal.tree
    Phylogenetic datasets
  327. 327.
    phytools::primate.data
    Phylogenetic datasets
  328. 328.
    phytools::primate.tree
    Phylogenetic datasets
  329. 329.
    phytools::salamanders
    Phylogenetic datasets
  330. 330.
    phytools::sunfish.data
    Phylogenetic datasets
  331. 331.
    phytools::sunfish.tree
    Phylogenetic datasets
    simmap
  332. 332.
    phytools::tortoise.geog
    Phylogenetic datasets
  333. 333.
    phytools::tortoise.tree
    Phylogenetic datasets
  334. 334.
    phytools::tropidurid.data
    Phylogenetic datasets
  335. 335.
    phytools::tropidurid.tree
    Phylogenetic datasets
    simmap
  336. 336.
    phytools::vertebrate.data
    Phylogenetic datasets
  337. 337.
    phytools::vertebrate.tree
    Phylogenetic datasets
  338. 338.
    phytools::wasp.data
    Phylogenetic datasets
  339. 339.
    phytools::wasp.trees
    Phylogenetic datasets
    multiPhylo
  340. 340.
    phytools::whale.tree
    Phylogenetic datasets
  341. 341.
    picante::IvesGodfray
    Host-parasitoid food web data
  342. 342.
    picante::phylocom
    Phylocom default data
  343. 343.
    pmc::anoles
    The anoles data set
  344. 344.
    pmc::tree
    The phylogeny for the anoles data set
    ouchtree
  345. 345.
    Quartet::sq_trees
    Eighteen example trees
    multiPhylo
  346. 346.
    ratematrix::anoles
    Data and phylogenetic tree for Anolis lizards
  347. 347.
    ratematrix::centrarchidae
    Data and phylogenetic tree for Centrarchidae fishes
  348. 348.
    RRphylo::DataApes
    Example dataset
  349. 349.
    RRphylo::DataCetaceans
    Example dataset
  350. 350.
    RRphylo::DataFelids
    Example dataset
  351. 351.
    RRphylo::DataOrnithodirans
    Example dataset
  352. 352.
    RRphylo::DataSimians
    Example dataset
  353. 353.
    RRphylo::DataUng
    Example dataset
  354. 354.
    RRPP::fishy
    Simulated Fish Data for Measurement Error Analysis
  355. 355.
    RRPP::flower
    Flower Production and Temperature
  356. 356.
    RRPP::mammalHR
    Mammal Home Range Data
    rrpp.data.frame
  357. 357.
    RRPP::mammalHRphy
    Phylogenetic Data for the Mammal Home Range Data
  358. 358.
    RRPP::motionpaths
    Simulated motion paths
  359. 359.
    RRPP::phytoplankton
    Phytoplankton Biomass and Eutrophication
  360. 360.
    RRPP::PlethCinHoff
    Plethodon comparative SVL data
  361. 361.
    RRPP::PlethMorph
    Plethodon comparative morphological data
    rrpp.data.frame
  362. 362.
    RRPP::podarcis
    Podarcis Wall Lizards from the Mediterranean Basin
  363. 363.
    RRPP::Pupfish
    Landmarks on pupfish
    rrpp.data.frame
  364. 364.
    RRPP::PupfishHeads
    Landmarks on pupfish heads
    rrpp.data.frame
  365. 365.
    RRPP::PupfishMR
    Experimental metabolic rate data from pupfish
  366. 366.
    RRPP::ReptAbund
    Reptile Abundance Data in Western Australia
  367. 367.
    RRPP::snakeHS
    Snake Head Size and Regional Variation
  368. 368.
    secsse::example_phy_GeoSSE
    A phylogeny with traits at the tips
  369. 369.
    secsse::phylo_vignette
    A phylogenetic reconstuction to run the vignette
  370. 370.
    secsse::traits
    A table with trait info to run the vignette
  371. 371.
    selac::model.fit
    Example yeast dataset
  372. 372.
    selac::model.fit
    Example yeast dataset
  373. 373.
    selac::non_zero_pos
    Example datasets
  374. 374.
    selac::phy
    Example yeast dataset
  375. 375.
    selac::phy
    Example yeast dataset
  376. 376.
    selac::yeast.gene
    Example yeast dataset
    DNAbin|8 x 0
  377. 377.
    sensiPhy::alien
    Alien Mammals dataset: Example dataset for the package sensiPhy
    data.phy
  378. 378.
    sensiPhy::alien.data
    Alien Mammals dataset: Example dataset for the package sensiPhy
  379. 379.
    sensiPhy::alien.phy
    Alien Mammals dataset: Example dataset for the package sensiPhy
    multiPhylo
  380. 380.
    sensiPhy::primates
    Primates dataset: Example dataset for the package sensiPhy
    data.phy
  381. 381.
    sensiPhy::primates.data
    Primates dataset: Example dataset for the package sensiPhy
  382. 382.
    sensiPhy::primates.phy
    Primates dataset: Example dataset for the package sensiPhy
    multiPhylo
  383. 383.
    strap::Asaphidae
    Phylogeny and age data for the Asaphidae
  384. 384.
    strap::Dipnoi
    Phylogeny and age data for dipnoans (lungfish)
  385. 385.
    strap::UKzones
    British regional stages for the Ordovician
  386. 386.
    taxize::apg_families
    MOBOT family names
  387. 387.
    taxize::apg_orders
    MOBOT order names
  388. 388.
    taxize::plantGenusNames
    Vector of plant genus names from ThePlantList
  389. 389.
    taxize::plantNames
    Vector of plant species (genus - specific epithet) names from ThePlantList
  390. 390.
    taxize::rank_ref
    Lookup-table for IDs of taxonomic ranks
  391. 391.
    taxize::rank_ref_zoo
    Lookup-table for IDs of taxonomic ranks (WoRMS)
  392. 392.
    taxize::species_plantarum_binomials
    Species names from Species Plantarum
  393. 393.
    taxize::theplantlist
    Lookup-table for family, genus, and species names for ThePlantList
  394. 394.
    taxize::worrms_ranks
    WORMS ranks
  395. 395.
    treebase::metadata
    metadata.rda
  396. 396.
    treebase::treebase
    treebase.rda
  397. 397.
    treedata.table::anolis
    Anole data
  398. 398.
    treeplyr::anolis
    Anole data
  399. 399.
    TreeSearch::congreveLamsdellMatrices
    100 simulated data matrices
  400. 400.
    TreeSearch::inapplicable.citations
    Thirty datasets with inapplicable data
  401. 401.
    TreeSearch::inapplicable.datasets
    Thirty datasets with inapplicable data
  402. 402.
    TreeSearch::inapplicable.phyData
    Thirty datasets with inapplicable data
  403. 403.
    TreeSearch::inapplicable.trees
    Thirty datasets with inapplicable data
  404. 404.
    TreeSearch::profiles
    Empirically counted profiles for small trees
  405. 405.
    TreeSearch::referenceTree
    Tree topology for matrix simulation
  406. 406.
    treespace::DengueBEASTMCC
    Dengue fever BEAST MCC tree
  407. 407.
    treespace::DengueSeqs
    Dengue fever sequences
    DNAbin|17 x 0
  408. 408.
    treespace::DengueTrees
    BEAST analysis of Dengue fever
    multiPhylo
  409. 409.
    treespace::fluTrees
    BEAST analysis of seasonal influenza (A/H3N2)
    multiPhylo
  410. 410.
    treespace::woodmiceTrees
    Bootstrap trees from woodmouse dataset
    multiPhylo
  411. 411.
    TreeTools::brewer
    Brewer palettes
  412. 412.
    TreeTools::Lobo.data
    Data from Zhang et al. 2016
  413. 413.
    TreeTools::Lobo.phy
    Data from Zhang et al. 2016
  414. 414.
    TreeTools::nRootedShapes
    Number of rooted / unrooted tree shapes
  415. 415.
    TreeTools::nUnrootedShapes
    Number of rooted / unrooted tree shapes
  416. 416.
    TreeTools::unrootedKeys
    Integer representing shape of a tree
  417. 417.
    TreEvo::ancStateExample
    Example Analysis Output of a Simulated Dataset
  418. 418.
    TreEvo::genRateExample
    Example Analysis Output of a Simulated Dataset
  419. 419.
    TreEvo::resultsBMExample
    Example Analysis Output of a Simulated Dataset
    multiRun_doRun_prc
  420. 420.
    TreEvo::resultsBoundExample
    Example Analysis Output of a Simulated Dataset
    multiRun_doRun_prc
  421. 421.
    TreEvo::simCharExample
    Example Analysis Output of a Simulated Dataset
  422. 422.
    TreEvo::simPhyExample
    Example Analysis Output of a Simulated Dataset
  423. 423.
    vegan::BCI
    Barro Colorado Island Tree Counts
  424. 424.
    vegan::BCI.env
    Barro Colorado Island Tree Counts
  425. 425.
    vegan::dune
    Vegetation and Environment in Dutch Dune Meadows.
  426. 426.
    vegan::dune.env
    Vegetation and Environment in Dutch Dune Meadows.
  427. 427.
    vegan::dune.phylodis
    Taxonomic Classification and Phylogeny of Dune Meadow Species
  428. 428.
    vegan::dune.taxon
    Taxonomic Classification and Phylogeny of Dune Meadow Species
  429. 429.
    vegan::mite
    Oribatid Mite Data with Explanatory Variables
  430. 430.
    vegan::mite.env
    Oribatid Mite Data with Explanatory Variables
  431. 431.
    vegan::mite.pcnm
    Oribatid Mite Data with Explanatory Variables
  432. 432.
    vegan::mite.xy
    Oribatid Mite Data with Explanatory Variables
  433. 433.
    vegan::norwegianShelf
    Norwegian Continental Shelf Macrofauna Data
  434. 434.
    vegan::pyrifos
    Response of Aquatic Invertebrates to Insecticide Treatment
  435. 435.
    vegan::sipoo
    Birds in the Archipelago of Sipoo (Sibbo and Borgå)
  436. 436.
    vegan::sipoo.map
    Birds in the Archipelago of Sipoo (Sibbo and Borgå)
  437. 437.
    vegan::varechem
    Vegetation and environment in lichen pastures
  438. 438.
    vegan::varespec
    Vegetation and environment in lichen pastures
  439. 439.
    windex::sample.data
    Sample data for windex
  440. 440.
    windex::sample.tree
    Phylogenetic tree to accompany sample.data