search

Nesvilab / FragPipe

A cross-platform Graphical User Interface (GUI) for running MSFragger and Philosopher - powered pipeline for comprehensive analysis of shotgun proteomics data
http://fragpipe.nesvilab.org
Other
179 stars 37 forks source link

TMT isotope correction factors? #963

Closed pieeye75 closed 1 year ago

pieeye75 commented 1 year ago

Hi,

I am trying to work out if FragPipe will allow me to put in the TMT isotope correction factors for a TMT 16-plex. I've had a good look around and I can't find anything. Am I missing something? I appreciate that if I treat all my samples in the same way the relative changes are comparable, but I like the idea of applying the correction factors.

thanks,

Peter

josephineabighanem commented 4 months ago

Hi, the question is marked as closed, but i couldn't find the answer. So is there a way to define the TMT isotope correction factors? Thanks for the help Josephine

fcyu commented 4 months ago

No, we don't support the isotope correct factors because we found that it did not significantly improve the results but made the tool harder to use.

Best,

Fengchao