as_tidygenomes: Create a new tidygenomes object

In SWittouck/tidyorthogroups: A Grammar of Genome Data Manipulation

Create a new tidygenomes object

Description

This function creates a new tidygenomes object from a genome table, pangenome table, genome tree or genome pair table.

Usage

as_tidygenomes(data)

Arguments

data	A data type that can be converted into a tidygenomes object

Details

data should be one of the following:

• a genome table: contains a variable genome, with unique values

• a pangenome table: contains the variables gene, genome and orthogroup

• a genome tree: should be of class phylo

• a genome pair table: contains the variables genome_1 and genome_2, with only unique combinations and without self-pairs

Value

A tidygenomes object: this is a list consisting of a genome table and optionally extra data objects related to the genomes in the genome table

Examples

genomes <- data.frame(genome = c("genome 1", "genome 2"))
tg <- as_tidygenomes(genomes)

SWittouck/tidyorthogroups documentation built on Feb. 2, 2023, 12:45 a.m.