sortTaxaFromTree {PhyloProfile} | R Documentation |
Get sorted supertaxon list based on a rooted taxonomy tree
sortTaxaFromTree(tree)
tree |
an "phylo" object for a rooted taxonomy tree |
A list of sorted taxa obtained the input taxonomy tree.
Vinh Tran tran@bio.uni-frankfurt.de
ppTaxonomyMatrix
for a demo taxonomy matrix data
data("ppTaxonomyMatrix", package = "PhyloProfile") # prepare matrix for calculating distances distDf <- subset(ppTaxonomyMatrix, select = -c(ncbiID, fullName)) row.names(distDf) <- distDf$abbrName distDf <- distDf[, -1] # create taxonomy tree rooted by ncbi10090 rootedTree <- createRootedTree(distDf, "ncbi10090") # get taxon list sorted from tree sortTaxaFromTree(rootedTree)