Difficulties creating a spectral library

Difficulties creating a spectral library t j f m voermans  2019-04-08


I have been trying to create a spectral library for several days now, but whatever I do I can't seem to get things right. What I did was, I downloaded a SpectraST file for Human Serum from Peptide Atlas (see picture: PeptideAtlas) and for Human from NIST (see picture: NIST). I have added the files I got as well for clarification.

I am sure I forget something obvious, but I can't seem to find it.


Nick Shulman responded:  2019-04-08
Hi, Tim,

You did not attach any files to this support request. Can you try again?
Files that are less than 50MB can be attached to a support request. If you have files that are larger than that you can upload them here:

-- Nick
Brendan MacLean responded:  2019-04-08
Hi Tim,
For the file types you mention (.sptxt and .msp), you shouldn't need to build anything, you should just be adding them to Skyline, which can read those formats without requiring any sort of build. Instead of clicking the "Build" button on the Peptide Settings - Libraries tab, you should be clicking the "Edit List" button and then the "Add" button. Then you simply give the library a name and the path to one of the files you mention.

This is covered (with a library from theGPM - .hlf) in the Targeted Method Editing tutorial (page 11, Using a Public Spectral Library):


Hope this helps you get past this issue and on to something more interesting.

t j f m voermans responded:  2019-04-11
Hi Nick and Brendan,

I have read the tutorial you mention multiple times now, but for some reason I wasn't able to connect the dots. Anyway, I successfully added the library to Skyline. So thank you!

Kind regards,