list.genomes {ORFik} | R Documentation

## List genomes created with ORFik

### Description

Given the reference.folder, list all valid references.

### Usage

    list.genomes(reference.folder = ORFik::config()["ref"])

### Arguments

`reference.folder` | character path, default: `ORFik::config()["ref"]`.

### Value

a data.table with 4 columns:
- character (name of folder)
- logical (does it have a gtf) - logical (does it have a fasta genome) - logical (does it have a STAR index)

### Examples

    ## Run with default config path
    #list.genomes()
    ## Run with custom config path
    list.genomes(tempdir())

[Package ORFik version 1.12.13 Index]