I am trying to set up skyline for small molecules and starting by going through the tutorial. On tutorial it shows skyline adapted to small molecule user interface, but on my version of skyline it does not have the button to select small molecules. Do I have the correct version of Skyline daily loaded? see attached.

Brendan MacLean responded:  2019-04-18

Have a look at the latest Skyline-daily release notes. You want to review the PowerPoint slides at the bottom:

Now you have a choice of UI modes between:

  • Proteomics
  • Small Molecule
  • Mixed

You must be in the Proteomics mode, which hides all the small molecule UI.


Nick Shulman responded:  2019-04-18
In Skyline-Daily we added a new mode-switching button located in the top right corner of the main Skyline window.

You should switch that to either "Molecule interface" or "Mixed interface" mode before bringing up the Insert Transition List dialog.
-- Nick
jmr responded:  2019-04-18
That is awesome! Thanks for your quick response. Looking forward to trying this for drug metabolism work. Are many groups using skyline for drug metabolism studies?

- Jeanne