1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
|
#!/usr/bin/env perl
use strict;
use warnings;
my $usage = "usage: $0 up_cats.counts\n\n";
my $counts_file = $ARGV[0] or die $usage;
main: {
my %data;
open (my $fh, "$counts_file") or die $!;
while (<$fh>) {
chomp;
my @x = split(/\t/);
my $trans = $x[0];
my $category = $x[5];
my $gene = $trans;
$gene =~ s/\_i\d+$//;
$data{$gene}->{$trans} = $category;
}
close $fh;
foreach my $gene (keys %data) {
my @trans = keys %{$data{$gene}};
if (scalar @trans < 2) { next; }
my %categories;
foreach my $trans (@trans) {
my $category = $data{$gene}->{$trans};
$categories{$category}++;
}
my @cats = keys %categories;
print join("\t", $gene, scalar(@trans), scalar @cats, join("__", sort @cats) ) . "\n";
}
exit(0);
}
|
