groupOTU-methods: groupOTU method

Description Usage Arguments Value

Description

group tree based on selected OTU, will traceback to MRCA

Usage

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groupOTU(object, focus, group_name = "group", ...)

## S4 method for signature 'raxml'
groupOTU(object, focus, group_name = "group")

## S4 method for signature 'hyphy'
groupOTU(object, focus, group_name = "group")

## S4 method for signature 'apeBootstrap'
groupOTU(object, focus, group_name = "group")

## S4 method for signature 'beast'
groupOTU(object, focus, group_name = "group")

## S4 method for signature 'codeml'
groupOTU(object, focus, group_name = "group")

## S4 method for signature 'codeml_mlc'
groupOTU(object, focus, group_name = "group")

## S4 method for signature 'gg'
groupOTU(object, focus, group_name)

## S4 method for signature 'ggplot'
groupOTU(object, focus, group_name = "group")

## S4 method for signature 'jplace'
groupOTU(object, focus, group_name = "group")

## S4 method for signature 'nhx'
groupOTU(object, focus, group_name = "group")

## S4 method for signature 'phangorn'
groupOTU(object, focus, group_name = "group")

## S4 method for signature 'phylip'
groupOTU(object, focus, group_name = "group")

## S4 method for signature 'paml_rst'
groupOTU(object, focus, group_name = "group")

## S4 method for signature 'phylo'
groupOTU(object, focus, group_name = "group")

## S4 method for signature 'r8s'
groupOTU(object, focus, group_name = "group", tree = "TREE")

Arguments

object

supported objects, including phylo, paml_rst, codeml_mlc, codeml, jplace, beast, hyphy

focus

a vector of tip (label or number) or a list of tips.

group_name

name of the group, 'group' by default

...

additional parameter

tree

which tree selected

Value

group index



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