MS software on wiki: http://en.wikipedia.org/wiki/Mass_spectrometry_software
BSI PEAKS studio: http://www.bioinformaticssolutions.com/products/peaks/index.php (commercial one)
MS tutorial video: http://www.youtube.com/watch?v=rBymrFzcaPM&feature=fvw
Bioinforamtics tools by R. Edgar. http://www.drive5.com/
more to come and updated.
If you find these stuff useful and informative, or you have some suggestions for improvements, make some constructive comments.