vect2tree {EnvNJ}

Convert a Set of Vectors into a Tree

Description

Converts a set of vectors into a tree.

Usage

vect2tree(path, metric = "cosine", clustering = "nj")

Arguments

path

path to the working directory. This directory must contain a txt file per vector and an additional txt file named vlist.txt that provides the names (one per line) of the vector txt files.

metric

character string indicating the metric (see metrics() to see the methods allowed).

clustering

string indicating the clustering method, either "nj" or "upgma".

Details

This function computes the distance matrix and builds the corresponding tree.

Value

a list with two elements: a distance matrix and a tree.

See Also

envnj(), fastaconc(), envfascpp()

Examples

## Not run: vec2tree("./data_t")