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| Nick Shulman responded: |
2022-02-12 12:15 |
A chromatogram library provides the same information to Skyline as a spectral library in terms of peak picking: the retention time and relative peak areas.
The shape of the chromatogram that is stored in the chromatogram library does not get used. Only the peak areas matter and retention time matter.
The dot product is calculated the same way for all types of libraries, and so, yes, it uses the normalized contrast angle.
-- Nick |
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| roman sakson responded: |
2022-02-12 16:24 |
Hi Nick,
thank you! What if I used a different gradient to produce data for my clib, therefore leading to different total retention times. Is there a way to incorporate iRT information in clibs as it is possible for spectral libraries?
Roman |
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| Nick Shulman responded: |
2022-02-12 16:38 |
With a chromatogram library, you can do the thing of going to:
Settings > Peptide Settings > Prediction > Calculator Button > Add
On the Edit iRT Calculator dialog you will need to choose some iRT standards and after you have done that, you can push the "Add" button at the bottom of the dialog and choose "Add spectral library" and then point Skyline at your .clib file.
When you are building a .blib spectral library, Skyline will sometimes put the iRT database table inside of the .blib file, but I don't think Skyline can do that with .clib files. With a .clib, you always need a separate .irtdb file.
-- Nick |
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| roman sakson responded: |
2022-02-12 16:41 |
As always, I have learned a lot after chatting with you in a short amount of time!
Many thanks!
Roman |
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