alternatives to fragpipe

[rsalz]

Nice tool! I would like to use it but do not want to use FragPipe. I have label free spectral identifications from Metamorpheus. Can I use Prophet and then use your tool somehow? Any suggestions?
Thanks!

[YongchaoDou]

Thanks for your interesting in SEPepQuant. We are developing a new feature which only need a pre-formatted peptide level quantification table. We will let you know when the new feature is ready.

[rsalz]

Awesome, thanks! Even if it's in beta, I'm interested in testing it out for you. Let me know :)