YtreeFun: Calculate the count on each subtree.
In liudoubletian/phyloMDA: An R package for phylogeny-aware microbiome data analysis
YtreeFun R Documentation
Calculate the count on each subtree.
Description
Calculate the count on each subtree.
Usage
YtreeFun(otu.tab, tree)
Arguments
otu.tab
a data frame or matrix containing the count data. Rows of the matrix represent observations and columns are the taxa.
tree
the phylogenetic tree.
Value
Returns a list of abundance matrices corresponding to internal nodes of the tree.
Examples
library(phyloseq)
otu.tab <- t(otu_table(combo.phyloseq.obj))
tree <- phy_tree(combo.phyloseq.obj)
ytree <- YtreeFun(otu.tab, tree)
length(ytree)
liudoubletian/phyloMDA documentation built on April 28, 2022, 6:51 p.m.
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| YtreeFun | R Documentation |
Calculate the count on each subtree.
Description
Calculate the count on each subtree.
Usage
YtreeFun(otu.tab, tree)
Arguments
otu.tab |
a data frame or matrix containing the count data. Rows of the matrix represent observations and columns are the taxa. |
tree |
the phylogenetic tree. |
Value
Returns a list of abundance matrices corresponding to internal nodes of the tree.
Examples
library(phyloseq) otu.tab <- t(otu_table(combo.phyloseq.obj)) tree <- phy_tree(combo.phyloseq.obj) ytree <- YtreeFun(otu.tab, tree) length(ytree)
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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