R Graphical Manual

Last data update: 2014.03.03

Data Source

R Release (3.2.3)
CranContrib
BioConductor
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Classification

Results 1 - 10 of 37 found.
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pdata-class (Package: phylobase) : Class "pdata"

Data class for phylo4d objects

● Data Source: CranContrib
● Keywords: classes
● Alias: [,pdata,ANY,ANY,ANY-method, [,pdata-method, [<-,pdata-method, [[,pdata,ANY,ANY-method, [[,pdata,ANY,missing-method, [[,pdata-method, [[<-,pdata-method, pdata-class, ptypes
● 0 images

phylo4-labels (Package: phylobase) : Labels for phylo4/phylo4d objects

Methods for creating, accessing and updating labels in phylo4/phylo4d objects

● Data Source: CranContrib
● Keywords:
● Alias: edgeLabels, edgeLabels,phylo4-method, edgeLabels<-, edgeLabels<-,phylo4-method, hasDuplicatedLabels, hasDuplicatedLabels,phylo4,ANY-method, hasDuplicatedLabels,phylo4-method, hasEdgeLabels, hasEdgeLabels,phylo4-method, hasNodeLabels, hasNodeLabels,phylo4-method, labels, labels,phylo4-method, labels<-, labels<-,phylo4-method, nodeLabels, nodeLabels,phylo4-method, nodeLabels<-, nodeLabels<-,phylo4-method, phylo4-labels, tipLabels, tipLabels,phylo4-method, tipLabels<-, tipLabels<-,phylo4-method
● 0 images

phyloXXYY (Package: phylobase) : Calculate node x and y coordinates

Calculates the node x and y locations for plotting a phylogenetic tree.

● Data Source: CranContrib
● Keywords: methods
● Alias: phyloXXYY
● 0 images

print (Package: phylobase) : print a phylogeny

Prints a phylo4 or phylo4d object in data.frame format with user-friendly column names

● Data Source: CranContrib
● Keywords: methods
● Alias: head, head,phylo4-method, names, names,phylo4-method, print, print,phylo4-method, show, show,phylo4-method, tail, tail,phylo4-method
● 0 images

ancestor (Package: phylobase) : Tree traversal and utility functions

Functions for describing relationships among phylogenetic nodes (i.e. internal nodes or tips).

● Data Source: CranContrib
● Keywords:
● Alias: ancestor, ancestors, children, descendants, siblings
● 0 images

nTips (Package: phylobase) : nTips, nNodes, nEdges

Number of tips, nodes and edges found in a tree.

● Data Source: CranContrib
● Keywords:
● Alias: nEdges, nEdges,phylo4-method, nNodes, nNodes,phylo4-method, nTips, nTips,phylo-method, nTips,phylo4-method
● 0 images

checkPhylo4 (Package: phylobase) : Validity checking for phylo4 objects

Basic checks on the validity of S4 phylogenetic objects

● Data Source: CranContrib
● Keywords: misc
● Alias: checkPhylo4, checkPhylo4Data, checkTree
● 0 images

phylobase-package (Package: phylobase) : Utilities and Tools for Phylogenetics

Base package for phylogenetic structures and comparative data.

● Data Source: CranContrib
● Keywords: package
● Alias: phylobase, phylobase-package
● 0 images

phylo4-class (Package: phylobase) : The phylo4 class

Classes for phylogenetic trees

● Data Source: CranContrib
● Keywords: classes
● Alias: phylo4-class
● 0 images

hasSingle (Package: phylobase) : Test trees for polytomies, inline nodes (singletons), or reticulation

Methods to test whether trees have (structural) polytomies, inline nodes (i.e., nodes with a single descendant), or reticulation (i.e., nodes with more than one ancestor). hasPoly only check for structural polytomies (1 node has more than 2 descendants) and not polytomies that result from having edges with a length of 0.

● Data Source: CranContrib
● Keywords: misc
● Alias: hasPoly, hasPoly,phylo4-method, hasRetic, hasRetic,phylo4-method, hasSingle, hasSingle,phylo4-method
● 0 images