Tags

[roushrsh]

Hi,

I have it working for unlabeled data, but I did a discovery run for TMT to determine targets from DIA, but I can't seem to search it properly.

I am doing everything like unlabeled, but putting --fixed-mod TMTpro, 304.2071,nK

in the additional options.

It gives these messages: Modification TMTpro with mass delta 304.207 at nK will be considered as fixed Mass accuracy will be fixed to 1e-05 (MS2) and 1e-05 (MS1) WARNING: peptidoform scoring enabled because variable modifications have been declared; to disable, use --no-peptidoforms The following variable modifications will be scored: UniMod:35 Cannot find a UniMod modification match for TMTpro: 148.106 minimal mass discrepancy; using the original modificaiton name

Then I proceed to get [7:18] Cannot perform mass calibration, too few confidently identified precursors [7:18] Cannot perform MS1 mass calibration, too few confidently identified precursors

followed by only a few hundred identifications.

Which I don't get when doing unlabeled.

Any suggestions?