Something I love about Proteome Discoverer? Flexibility. You can get awesome data with a simple workflow with just 4 nodes. You can throw on an additional search engine if you want and get more data out of 5. If you want something extra special? Hell, you can build that, too!
Wanna see what PD is truly capable of? Stop by Aimee Rinas's (from Lisa Jones's lab at IUPUI) poster at ASMS next week. Aimee is building PD custom super workflows like this one above!