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Precursor Area visualisation in AutoQC

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Precursor Area visualisation in AutoQC dhabaker  2024-03-06 09:05:45
 

Hello,

I am having trouble visualizing both the precursor area and precursor mass error visualization for my QC replicates. However, the retention time visualization seems to work well for the same replicates. I have attached a file showing this error.

Can you please assist with this issue?

Please let me know if any further details are required regarding this.

Thank you.

Best regards,
Dhanwin
 
 
Vagisha Sharma responded:  2024-03-06 12:38:30

Hi Dhanwin,

Thanks for your question. I looked at the Skyline documents recently uploaded to your QC folder. For most of the molecules I don't see a chromatogram, and the precursor areas are N/A. That is why you don't see them in Panorama either. It may be that you need to adjust the settings in Skyline (Skyline > Transition Settings > Full-Scan) so that it can do a better job of chromatogram extraction from the raw files. You can get more help related to that on the Skyline support board at https://skyline.ms/support.url.

Thanks,
Vagisha
 
dhabaker responded:  2024-03-07 07:07:56

Hello Vagisha,

Thank you for your prompt response and suggestion on adjusting the settings in Skyline. I am using the following settings (Attached file) currently for a DDA run acquired on timsTOF pro. Can you please suggest any particular modifications to these settings?

Best Regards,
Dhanwin
 
Brendan MacLean responded:  2024-03-07 10:31:36

Please post this to the Skyline support page. (Help > Support in Skyline or https://skyline.ms/support.url)

I will try to answer quickly on that support board after you post.