Parse FastQC data file for a single sample as a named vector

'parse_fastqc_stats' reads a file obtained from running FastQC on a FASTQ file. This file is parsed into a named vector.

Usage

parse_fastqc_stats(file_path)

Arguments

file_path

String: Path to a locally stored MetaPhlAn output file in TXT format

Value

A named vector containing a number of sample-level statistics.

Details

'parse_fastqc_stats' does not parse every single item of information within the fastqc_data.txt file, but gathers only the 'Basic Statistics' module.

Examples

if (FALSE) { # \dontrun{
if(interactive()){
 fpath <- file.path(system.file("extdata",
                                package = "parkinsonsMetagenomicData"),
                    "sample_fastqc_data.txt")
 parse_fastqc_stats(fpath)
 }
} # }