search

Nesvilab / philosopher

PeptideProphet, PTMProphet, ProteinProphet, iProphet, Abacus, and FDR filtering
https://philosopher.nesvilab.org
GNU General Public License v3.0
109 stars 18 forks source link

label MS #300

Closed XiaofengxBjmu closed 2 years ago

XiaofengxBjmu commented 2 years ago

Hi there, Is it possible to analysed SILAC or itraq4/8 samples with Philosopher? If I get a Arg10, Lys8, Arg6, Lys4 SILAC Phosphoproteome data. Will the variable_mod be right?

variable_mod01 = 15.994915 M 0 3 -1 0 0 0.0 variable_mod02 = 79.966331 STY 0 3 -1 0 0 97.976896 variable_mod03 = 42.010565 n 0 3 -1 0 0 0.0 variable_mod04 = 4.025107 K 1 3 -1 0 0 0.0 variable_mod05 = 6.020129 R 1 3 -1 0 0 0.0 variable_mod06 = 8.014199 K 2 3 -1 0 0 0.0 variable_mod07 = 10.008269 R 2 3 -1 0 0 0.0 variable_mod08 = 0.0 X 0 3 -1 0 0 0.0 variable_mod09 = 0.0 X 0 3 -1 0 0 0.0 max_variable_mods_in_peptide = 5 require_variable_mod = 0

Thank you very much in advance.

prvst commented 2 years ago

Hi @XiaofengxBjmu, you should redirect those questions to the Comet maintainers, we just distribute their program within our tools. You can reach out to them here