Once you've installed the modules using Zaxo's advice, there are a couple of ways to interface to your data analysis scripts.

The simplest would be to externally call them from within your program, using backticks or similar - something like this...

my $munged_data = `analysis_program $data`;
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Alternatively, you could look into including the scripts in your source. Any modules should be easily importable with the 'use' statement, and it should be a simple task to replace command line parameters with passed-in parameters...something like this...

#Old Code
my $data = $ARGV[0];
do_stuff($data);

#New Code
package Munger;
sub munge_data {
  my $data = shift();
  do_stuff($data);
}
1;
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HTH
Ben.