File: tab_to_fasta.pl

package info (click to toggle)
trinityrnaseq 2.11.0%2Bdfsg-6
  • links: PTS, VCS
  • area: main
  • in suites: bullseye
  • size: 417,528 kB
  • sloc: perl: 48,420; cpp: 17,749; java: 12,695; python: 3,124; sh: 1,030; ansic: 983; makefile: 688; xml: 62
file content (24 lines) | stat: -rwxr-xr-x 278 bytes parent folder | download | duplicates (4) 
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
 
#!/usr/bin/env perl

use strict;
use warnings;

main: {
	while (<STDIN>) {
		unless (/\w/) { next; }
		chomp;
		my @x = split (/\t/);
		my $seq = pop @x;

		# make fasta
		$seq =~ s/(\S{60})/$1\n/g;
		chomp $seq;

		print ">" . join (" ", @x) . "\n$seq\n";
		
	}

	exit(0);
}