read.fastq {LocaTT}

Read FASTQ Files

Description

Reads FASTQ files. Does not support the reading of FASTQ files with sequences or quality scores wrapping multiple lines.

Usage

read.fastq(file)

Arguments

file

A string specifying the path to a FASTQ file to read.

Value

A data frame with fields for sequence names, sequences, comments, and quality scores.

See Also

write.fastq for writing FASTQ files.
read.fasta for reading FASTA files.
write.fasta for writing FASTA files.

Examples

# Get path to example FASTQ file.
path_to_fastq_file<-system.file("extdata",
                                "example_query_sequences.fastq",
                                package="LocaTT",
                                mustWork=TRUE)

# Read the example FASTQ file.
read.fastq(file=path_to_fastq_file)