build_tree: building tree

In MicrobiotaProcess: an R package for analysis, visualization and biomarker discovery of microbiome

Description

The function can be used to building tree.

Usage

build_tree(seqs, ...)

## S4 method for signature 'DNAStringSet'
build_tree(seqs, ...)

## S4 method for signature 'DNAbin'
build_tree(seqs, ...)

## S4 method for signature 'character'
build_tree(seqs, ...)

Arguments

seqs	DNAStringSet or DNAbin, the object of R.
...,	additional parameters, see also AlignSeqs.

Value

the phylo class of tree.

Author(s)

Shuangbin Xu

Examples

seqtabfile <- system.file("extdata", "seqtab.nochim.rds", 
                          package="MicrobiotaProcess")
seqtab <- readRDS(seqtabfile)
refseq <- colnames(seqtab)
names(refseq) <- paste0("OTU_",seq_len(length(refseq)))
# refseq <- Biostrings::DNAStringSet(refseq)
# tree <- build_tree(refseq)
# or
# tree <- build_tree(refseq) 

MicrobiotaProcess documentation built on April 18, 2021, 6 p.m.