treeplyr: 'dplyr' Functionality for Matched Tree and Data Objects

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Matches phylogenetic trees and trait data, and allows simultaneous manipulation of the tree and data using 'dplyr'.

Author
Josef Uyeda
Date of publication
2016-06-24 07:30:54
Maintainer
Josef Uyeda <josef.uyeda@gmail.com>
License
GPL-2 | GPL-3
Version
0.1.2
URLs

View on CRAN

Man pages

anolis
Anole data
detectAllCharacters
Apply detectCharacterType over an entire matrix
detectCharacterType
Function to detect whether a character is continuous or...
filterMatrix
Filter a matrix, returning either all continuous or all...
filter_.treedata
Function for filtering rows from an object of class...
forceFactor
Function for checking whether a treedata object contains only...
forceNames
Force names for rows, columns, or both
forceNumeric
Function for checking whether a treedata object contains only...
getVector
A function for returning a named vector from a data frame or...
group_by_.treedata
Function for grouping an object of class 'treedata'
hasNames
Row and column name check
make.treedata
Function for making an object of class 'treedata'
mutate_.treedata
Function for mutating an object of class 'treedata'
paint_clades
Add regimes to a treedata object
reorder.treedata
Reorder a 'treedata' object
select_.treedata
Function for selecting columns from an object of class...
summarise_.treedata
Function for summarizing an object of class 'treedata'
tdapply
Apply a function over all treedata object columns and return...
treedply.treedata
Run a function on a 'treedata' object
treeplyr
treeplyr: 'dplyr' Functionality for Matched Tree and Data...
treeply.treedata
Run a function on the phylogeny of a 'treedata' object

Files in this package

treeplyr
treeplyr/inst
treeplyr/inst/tests
treeplyr/inst/tests/test-treedata.R
treeplyr/inst/tests/test-treeplyr.R
treeplyr/src
treeplyr/src/prep_branches.cpp
treeplyr/NAMESPACE
treeplyr/data
treeplyr/data/anolis.rda
treeplyr/R
treeplyr/R/treeplyr_functions.R
treeplyr/R/plotting_functions.R
treeplyr/R/anolis.R
treeplyr/R/detectCharacterType.R
treeplyr/R/treeplyr-package.R
treeplyr/MD5
treeplyr/DESCRIPTION
treeplyr/man
treeplyr/man/mutate_.treedata.Rd
treeplyr/man/select_.treedata.Rd
treeplyr/man/filterMatrix.Rd
treeplyr/man/forceNames.Rd
treeplyr/man/treeply.treedata.Rd
treeplyr/man/tdapply.Rd
treeplyr/man/detectAllCharacters.Rd
treeplyr/man/filter_.treedata.Rd
treeplyr/man/detectCharacterType.Rd
treeplyr/man/make.treedata.Rd
treeplyr/man/group_by_.treedata.Rd
treeplyr/man/getVector.Rd
treeplyr/man/forceFactor.Rd
treeplyr/man/anolis.Rd
treeplyr/man/treeplyr.Rd
treeplyr/man/hasNames.Rd
treeplyr/man/paint_clades.Rd
treeplyr/man/treedply.treedata.Rd
treeplyr/man/forceNumeric.Rd
treeplyr/man/reorder.treedata.Rd
treeplyr/man/summarise_.treedata.Rd