config.exper {ORFik} | R Documentation

## Set directories for experiment

### Description

Defines a folder for: 1. fastq files (raw_data)
2. bam files (processed data)
3. references (organism annotation and STAR index)
4. Experiment (name of experiment)

### Usage

    config.exper(experiment, assembly, type, config = ORFik::config())

### Arguments

`experiment` | short name of experiment (must be valid as a folder name)
`assembly` | name of organism and assembly (must be valid as a folder name)
`type` | name of sequencing type, Ribo-seq, RNA-seq, CAGE.. Can be more than one.
`config` | a named character vector of length 3, default: `ORFik::config()`

### Value

named character vector of paths for experiment

### Examples

    ## Save to default config location
    #config.exper("Alexaki_Human", "Homo_sapiens_GRCh38_101", c("Ribo-seq", "RNA-seq"))

[Package ORFik version 1.12.13 Index]