Question about using with PeptideShaker

[justmpm]

Hi,
In the instructions, it says you can load a .tabular file from PeptideShaker, but I don't see a
way for PeptideShaker to export in the .tabular format. Do you know which export filters
I need to use to get a .tabular output, or which output I can use with FlashLFQ?

Thanks!
Mike

[trishorts]

i don't have a ready answer. i posted an issue on the peptide shaker github
compomics/peptide-shaker#507

[trishorts]

this comment by the peptide shaker team:
There is a section in our tutorial material on how to export data from PeptideShaker in different formats. Please check out pages 35 to 39 of Chapter 1.4 - Browsing Identification Results.

[justmpm]

Hi,
There is no way that I can find, even using the tutorial, to export a .tabular. However, I did find that both Export->Identification Features->Default PSM Report is compatible with FlashLFQ. So is Export->Identification Features->Extended PSM Report. The native .txt file exported by PeptideShaker is fine, no need to change the file name to end with .tabular.

Thanks for your help!
Cheers
Mike