Friday, June 20, 2014

Physikron: Algorithms to boost shotgun coverage?

I have several sheets of paper on my desk listing things to tell you guys about from ASMS.  This one is first because I got coffee on the sheet its on and I was afraid I wouldn't be able to read my notes later...

Physikron is a pre-processing program.  Your RAW data goes to Physikron, it does proprietary magic and then you give the files to your search engine.  Why on earth would you do this?

82% boost in proteins ID'ed?!?!?!?!

This is pretty unbelievable.  In fact, I'd almost go right by this one.  But it has papers backing it up.  Now, I don't love giving my data to black box programs that are doing things I can't know about.  At the end, however, if I get more high confidence protein IDs, I can get over it.

You can check out Physikron at the website here.


  1. A few more details about the program are given in their application note:

  2. Thanks for the additional info!

  3. It remindes me the same method in another talk, but that one is free and open source.

    1. Do you remember what it was called? I'd love to check it out! I'll dig through and see if I can come up with anything!