kdetrees.complete: Complete kdetrees analysis convenience function
Description
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.Usage
kdetrees.complete(infile, ...,
treeoutfile = "outliers.tre", csvfile = "results.csv",
plotfile = "plot.png", histfile = "hist.png")Arguments
infile
newick file with trees
...
additional parameters for kdetrees
treeoutfile
write outlier trees in newick format
to this file
csvfile
write density results to this file
plotfile
print scatterplot of results to this
file
histfile
print histogram of density estimates to
this file