medoids {microcontax}

The ConTax medoids

Description

The genus medoids from the ConTax data set.

Usage

data(medoids)

Details

medoids is a data.frame object containing the medoide sequences for each genus in the ConTax data sets (both contax.trim and contax.full).

The medoide sequence in a genus is the sequence having the smallest sum of distance to all other members of the same genus. Thus, it is the sequence closest to the centre of the genus. The medoids can be used as the representative of each genus, e.g. for building trees for the entire taxonomy.

The taxonomy information for each sequence can be extracted from the Header column by the supplied extractor-functions getDomain, getPhylum,...,getGenus.

Author(s)

Hilde Vinje, Kristian Hovde Liland, Lars Snipen.

See Also

contax.full, getDomain.

Examples

data(medoids)
summary(medoids)