profile_to_alignment {agvgd}

R Documentation

Converts a sequence profile to an alignment

Description

This function converts a sequence profile as provided in the format of the package {protean} to an {agvgd} alignment — an alignment in this sense is simply a character matrix whose elements are protein residues in one-letter notation, rows are sequences and columns correspond to alignment positions.

Usage

profile_to_alignment(profile)

Arguments

profile

A sequence profile object as returned by protean::read_profile() or protean::get_profile(). See the {protean} package at https://github.com/maialab/protean.

Value

An alignment object, i.e. a character matrix whose elements are protein residues in one-letter notation. Rows are sequences and columns are alignment positions.

---