A PD user has produced a short series of videos to help us all get going with Proteome Discoverer 2.2.
The videos don't seem to cover topics that haven't changed from PD 2.0 and PD 2.1 so I've added some links to old videos that fill in the blanks.
Setting up Proteome Discoverer 2.2 for first use: https://vimeo.com/216704831/dcdd4b7384
Adding FASTA files from Hard Drive (from my PD 2.0 videos): https://vimeo.com/115595009
How to configure your Mascot Server (from my PD 2.0 videos): https://vimeo.com/117042117
What is the SpectrumRC node and how do you use it? https://vimeo.com/216737928/bfc09afe5f
Getting started with label free quan with Minora! https://vimeo.com/216690621/95caaff85c
A more in-depth look at the precursor ion quantification nodes: https://vimeo.com/216734570/3b3546c44b
Looking at the Minora results: https://vimeo.com/216699979/fe1ed3bb4c
Finding what is significantly different in your data with Volcano plots: (updated link)
Reporter ion quantification report output: https://vimeo.com/216702197/292d44c572
Using Filters and setting default filters for PD 2.2: https://vimeo.com/216718011/d4e05cbf40
Optimizing the MSF Files consensus node: https://vimeo.com/216722376/204a582cf0