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Nesvilab / FragPipe

A cross-platform proteomics data analysis suite
http://fragpipe.nesvilab.org
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How to set a modification not C-term? #1763

Open a995752924 opened 3 months ago

a995752924 commented 3 months ago

Hello,

When using the Fragpipe, I have a problem with the modification setting. How to set a modification not C-term, like this in Spectronaut? Capture

Thank you!

fcyu commented 3 months ago

Current version does not support it.

Best,

Fengchao

anesvi commented 3 months ago

Could be a useful option to enable. I assume you want to look for PTMs on K that should prevent trypsin from cleaving next to it? You could also just apply an extra filter at the end?

a995752924 commented 3 months ago

Could be a useful option to enable. I assume you want to look for PTMs on K that should prevent trypsin from cleaving next to it? You could also just apply an extra filter at the end?

Thanks. I assume that PTMs on K prevent trypsin from cleaving next to it. Can I just remove the precursors with PTMs on C-term in the "report.tsv"? Will this influence the quantification of the PTM sites?