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#!/usr/bin/env perl
use strict;
use warnings;
my $usage = "usage: $0 breakpoint.output [CM|CS]\n\n";
my $breakpoint_file = $ARGV[0] or die $usage;
my $CM_or_CS = $ARGV[1] or die $usage;
unless ($CM_or_CS =~ /^(CM|CS)$/) {
die $usage;
}
my $index = ($CM_or_CS eq 'CS') ? 3:4;
my @pos_counter;
$#pos_counter = 1600; # set to presumed max xrange
open (my $fh, $breakpoint_file) or die $usage;
while (<$fh>) {
chomp;
my @x = split(/\t/);
$pos_counter[ $x[$index] ]++;
}
close $fh;
for (my $i = 0; $i <= $#pos_counter; $i++) {
my $val = $pos_counter[$i] || 0;
print "$i\t$val\n";
}
exit(0);
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