Hey All, I have 2 ArrayOfArrays, one with a gene name and its score, like this:

@gene_score = (
         [ "gene_name_0", "score_0" ],
         [ "gene_name_1", "score_1" ],
            ...
         [ "gene_name_400", "score_400" ]
);
[download]

and, one with a gene name and its start and stop positions on a chromosone:

@gene_start_stop_chr = (
         [ "gene_name_0", "start_0", "stop_0", "chr_0" ],
         [ "gene_name_1", "start_1", "stop_1", "chr_1" ],
            ...
          [ "gene_name_30000", "start_30000", "stop_30000", "chr_30000
+" ]
);
[download]

And of course I want to match the scores with the positions, using the gene names, so that I end with an array:

@results = (
         [ "gene_name_0", "score_0", "start_0", "stop_0", "chr_0" ],
         [ "gene_name_1", "score_1", "start_1", "stop_1", "chr_1" ],
            ...
         [ "gene_name_400", "score_400", "start_400", "stop_400", "chr
+_400" ],
);
[download]

The code I've written so far is (@gene_start_stop_chr abbreviated till @gssc):

for (my $a = 0; $a < scalar @gene_score; $a++) {
        for (my $b = 0; $b < scalar @gssc; $b++) {
                if ("$gene_score[$a][0]" eq "$gssc[$b][0]") {
                print "$gene-score[$a][0]\t$gene_score[$a][1]\t$gssc[$
+b][1]\t$gssc[$b][2]\t$gssc[$b][3]\n";

                }
        }
}
[download]

Which works, but is very slow, as I am comparing each of the 400 gene names of my first array with every of the 30000 gene names in the second array. So I was wondering of there are changes I could make to speed things up.
Thanks in advance.

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