need help with extract info using regular expression from input line

[manishabh77]

I want to extract some info from the following input line using perl regular expression. I will appreciate any help in doing so.

input line:
hg19_ensGene_ENST00000237247 range=chr1:67208779-67210057 5'pad=0 3'pad=0 strand=+ repeatMasking=none

info to be extracted:
chr1:67208779-67210057:+

The perl code i use till now that works successfully is:

while(<LOC>){
        chomp;
     if(/^>(\w+)\s\w+\=(chr\w+)\:(\d+)\-(\d+)/)    
               $loc{$1} = "$2:$3:$4:$5"; 
        print $loc{$1}."\n";
        }
}
 

extracts the following info:chr1:67208779-67210057
however i am unable to extract + info from the input line above.

[numberwhun]

The reason you aren't extracting the "+" is because you aren't telling it to. The "+" seems to be after "strand=" and I don't see you matching that anywhere. You may want to rework your regex a bit.

Regards,

Jeff

[RonB]

#!/usr/bin/perl
 
use strict;
use warnings;
use Data::Dumper;
 
my $str = "hg19_ensGene_ENST00000237247 range=chr1:67208779-67210057 5'pad=0 3'pad=0 strand=+ repeatMasking=none";
my ($range, $strand) = (split /[\s=]/, $str)[2,8];
print Dumper ($range, $strand);

[murugaperumal]

 
my $var="hg19_ensGene_ENST00000237247 range=chr1:67208779-67210057 5'pad=0 3'pad=0 strand=+ repeatMasking=none";
if($var=~/.*(chr1(:)[0-9-]+).*(\+) .*/)
{
    print "$1$2$3";
}