graph.ex: An example graph, built based on pairwise TN93 distances

In PoonLab/clustuneR: Molecular clustering implementation and predictive optimization

An example graph, built based on pairwise TN93 distances

Description

This implementation of a graph is a list, describing a set of sequences and the distances between them. See create.graph for more information on how this graph was created using alignment.ex as input

Usage

graph.ex

Format

A list of 3 variables

seq.info

See seq.info.ex, a data.table containing sequence meta data

edge.info

A named, weighted pairwise distance matrix.

growth.resolved

a data.table pairing new sequences, to a single sequence. In order to ensure that clusters do not merge upon growth, a new sequence may only join up to one old cluster. By default, new sequences join the cluster of the sequence they are most similar to.

PoonLab/clustuneR documentation built on Jan. 29, 2024, 2:40 a.m.