config.save {ORFik} | R Documentation

## Save/update directory config for ORFik experiments

### Description

Defines a folder for fastq files (raw_data), bam files (processed data) and references (organism annotation and STAR index)

### Usage

    config.save(
      file = "~/Bio_data/ORFik_config.csv",
      fastq.dir,
      bam.dir,
      reference.dir
    )

### Arguments

`file` | file of config for ORFik, default: "~/Bio_data/ORFik_config.csv"
`fastq.dir` | directory where ORFik puts fastq file directories, default: config()["fastq"]
`bam.dir` | directory where ORFik puts bam file directories, default: config()["bam"]
`reference.dir` | directory where ORFik puts reference file directories, default: config()["ref"]

### Value

invisible(NULL), file saved to disc

### Examples

    ## Save at another config location (not adviced!)
    config_location <- "/media/Bio_data/ORFik_config.csv"
    #config.save(config_location, "/media/Bio_data/raw_data/",
    # "/media/Bio_data/processed_data", /media/Bio_data/references/)

[Package ORFik version 1.12.13 Index]