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# NAME

FASTX::XS - Fast FASTA/FASTQ parser using kseq.h

# SYNOPSIS

    use FASTX::XS;
    
    # Parse a FASTA or FASTQ file (can be gzipped)
    my $parser = FASTX::XS->new("sequence.fa.gz");
    
    # Iterate through all sequences
    while (my $seq = $parser->next_seq()) {
        print "Name: $seq->{name}\n";
        print "Sequence: $seq->{seq}\n";
        
        # Print comment if available
        print "Comment: $seq->{comment}\n" if exists $seq->{comment};
        
        # Print quality if available (FASTQ)
        print "Quality: $seq->{qual}\n" if exists $seq->{qual};
    }

# DESCRIPTION

FASTX::XS is a Perl module for fast parsing of FASTA and FASTQ files
using the kseq.h library from Heng Li's klib. It supports both uncompressed and
gzipped files.

This module provides a simple interface to access sequences from FASTA/FASTQ files
with high performance and low memory usage.

# METHODS

## new(filename)

Creates a new parser object for the specified file. The file can be either a regular
FASTA/FASTQ file or a gzipped file (.gz extension).

## next\_seq()

Returns the next sequence from the file as a hash reference with the following keys:

- name - The sequence identifier (required)
- seq - The sequence string (required)
- comment - The comment string (optional)
- qual - The quality string for FASTQ files (optional)

Returns undef when there are no more sequences to read.

# AUTHOR

Your Name, <your.email@example.com>

# COPYRIGHT AND LICENSE

Copyright (C) 2025 by Your Name

This library is free software; you can redistribute it and/or modify
it under the same terms as Perl itself.