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Run FastQC on all FASTQ files listed in a samples.csv file

Source: R/04_run_fastqc.R
run_fastqc.Rd

This function reads a `samples.csv` file from a given path, extracts `R1` and optionally `R2` FASTQ paths, and runs FastQC on all unique files. The output is saved under `results/fastQC/` in the same directory as the CSV.

Usage

run_fastqc(sample_csv)

Arguments

sample_csv

Path to the `samples.csv` file.

Value

A character vector of FastQC system commands executed.