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 1.14.7 Index]