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.

4 comments:

  1. A few more details about the program are given in their application note: http://www.physikron.com/wp-content/uploads/2014/03/Physikron-application-note-n1_FV.pdf
    -Kristian

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  2. Thanks for the additional info!

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

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    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!

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