Bioperl使用

根据网易云课程整理，禁转

测序文件读入写出

use Bio::SeqIO;
use Bio::Seq;
use Data::Dumper;

#fasta
$in = Bio::SeqIO->new(-file => "D:/test.fa", -format => 'Fasta', -alphabet =>"dna");
$out = Bio::SeqIO->new(-file => ">D:/aa.fa", -format => 'EMBL');

while (my$seqobj = $in->next_seq()){
	my $id = $seqobj->id(); 	#the human read-able id of the sequence
	my $seq = $seqobj->seq();	#string of sequence
	my $desc = $seqobj->desc();	#a description of the sequence
	my $alphabet = $seqobj->alphabet();	#one of 'dna', 'rna', 'protein'
	my $len = $seqobj->length();

	print $seqobj."\n";
	print Dumper($seqobj);
	$out->write_seq($seqobj);  #实现格式转换
	
	last;	#只读一条序列
}

#fastq双端
$in1 = Bio::SeqIO -> new(-file =>"D:/test_1.fq", -format => 'fastq');
$in2