Dear Skyline team,
Thanks for an amazing tool and support.
I'm trying to set up a library for DDA with MS1 filtering, which works perfectly fine for many of my samples. However, one specific sample consistently gives an error (attached) while importing the pepxml with the Skyline wizard. I have both pepxml and .raw files in the same folder. I've also tried to use .msf file instead of pepxml: I can build a library if Score threshold=1, which is rather useless, but not when Score threshold=0.05 (same error message as attached).
I've used Proteome Discoverer 1.4 for my pepxml and .msf files.
Can you please help?
Many thanks
Adnan