Crate noodles_fastq[−][src]
Expand description
noodles-fastq handles the reading and writing of the FASTQ format.
FASTQ is a text format with no formal specification and only has de facto rules. It typically consists of a list of records, each with four lines: a read name, a sequence, a plus line, and quality scores.
The read name is prefixed with an @
(at sign) character. The sequence is a list of bases
encoded using IUPAC base symbols. The plus line is effectively a separator, sometimes repeating
the read name, and is commonly discarded. The quality scores is list of Phred quality scores
offset by 33 and is parallel to a base in the sequence.
Examples
Read all records from a file
use noodles_fastq as fastq; let mut reader = File::open("sample.fastq").map(BufReader::new).map(fastq::Reader::new)?; for result in reader.records() { let record = result?; println!("{:?}", record); }
Modules
FASTQ index (FAI) and fields.
Structs
Functions
Indexes a FASTQ file.