createGrouping: Creating a Taxa Table as Input to Other Functions in package...
In Chien-Hsun/rePhylo: Re-investigating and Improving Phylogenies

Description Usage Arguments See Also Examples

By giving percent or count, the groupings are created from nodes showing the percent or count of concordances above percent or count, respectively, and returns a data.frame that can be used directly as taxa in functions cladeFilter and backboneBP. Also can specify the nodes to produce groupings by giving nodes directly.

1	createGrouping(concor, percent = 0.5, count = NULL, bp = NULL, nodes = NULL)

`concor`	an object from "`concor.node`".
`percent`	a numeric between 0 to 1. The groupings are created from nodes showing the percent of concordances above `percent`. Defaults to `0.5`.
`count`	a numeric or integer higher than or equals to 1. The groupings are created from nodes showing the count of concordances above `count`. Defaults to `NULL` and uses `percent`.
`bp`	a numeric specifying with which bp the result in `concor` is used to create `taxa`. Defaults to `NULL` and the first result in `concor` is used.
`nodes`	a numeric vector specifying the node(s) to create `taxa`, regardless of `percent` and `count`. Defaults to `NULL`.

concor.node

## Not run: 
data(Brassidata)
trees <- Brassidata$trees
ref <- Brassidata$ref
concor.n<-concor.node(ref = ref,trees = trees, bp = c(0,30,50), getTreeNames = FALSE)
# to get groupings from nodes with >70% tree in concordance
taxa <- createGrouping(concor.n, percent = 0.7)

## End(Not run)