利用perl语言从GCF_016889705.1.gff文件中提取以下信息,seqid、type、start、end、lenth、interval、product
Perl语言可以用来从GCF_016889705.1.gff文件中提取seqid、type、start、end、length、interval和product信息。下面是一个示例:
#!/usr/bin/perl
use strict;
use warnings;
my $file = 'GCF_016889705.1.gff';
open (FILE, "<$file") or die "Cannot open file $file: $!";
while (my $line = <FILE>) {
# skip empty lines and comments (lines starting with "#")
next if ($line =~ /^\s*$/ || $line =~ /^#/);
# split line into fields
my @fields = split(/\t/,$line);
# extract the required information from the fields of each line
my ($seqid, $type, $start, $end, $length) = @fields[0..4];
# calculate interval between start and end positions
my $interval = abs($start -$end) + 1;
# extract product field from attributes column in GFF file (last column) my ($product) = ($fields[8] =~ /product=(.*?);/);
print "$seqid\t$type\t$start\t$end\t$length\t$interval\t$productn"; } close FILE;
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