kdetrees.complete

infile

write outlier trees in newick format to this file

treeoutfile

csvfile

print scatterplot of results to this file

plotfile

print histogram of density estimates to this file

histfile


Performs a complete kdetrees analysis, starting with reading trees
from a newick file on disk, and writing result files to the
working directory. Names and location of output files may be
controlled by optional arguments.


A non-parametric method for identifying potential
outlying observations in a collection of phylogenetic trees based
on the methods of Owen and Provan (2011). Such discordant trees
may indicate problems with sequence annotation or tree
reconstruction, or they may represent interesting biological
phenomena, such as horizontal gene transfers.

kdetrees.complete: Complete kdetrees analysis convenience function

Description

Usage

Arguments

Value