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                                            Fengchao

PTM Prophet error crashes run

You can search peptides only with alkylation or 156.1151 on C or non-modified using ```shell variable_mod = 57.02146 C 3 variable_mod = 156.1151 C 3 ``` In this setting, there...

PTM Prophet error crashes run

Hmm, then I am confused by how PTMProphet deals with the modifications. Maybe you can contact them on https://groups.google.com/g/spctools-discuss Best, Fengchao

PTM Prophet error crashes run

This thread is about PTM **Prophet**. Could you open a new one? Thanks, Fengchao

MS Fragger stops during combination of results from slices

I don't think so. I will remind @guoci to take a look. Thanks, Fengchao

MS Fragger stops during combination of results from slices

Hi @asalt , Thank you so much for the testing and debugging. Could you create a pull request with your changes? We will review and merge if it looks good....

MS Fragger stops during combination of results from slices

Hi @DirkBenndorf , > Furthermore, I tried the docker version of FragPipe, but the container stops immediately after starting. Should adjust something to get running? I guess this is a...

Open search on non-Tryptic peptides

Hi @WrennPockTwo Could share the psm.tsv files? Thanks, Fengchao

Open search on non-Tryptic peptides

I don't get it. The mass offset only has 0 in the log file. What is wrong with the delta mass column? Can you share a screenshot where you think...

Open search on non-Tryptic peptides

@danielgeiszler Is this one fixed? Thanks, Fengchao

DIA_spec_diaPASEF DIANN output pg file did not contain protein name

Thanks for the feedback. We will put more information to the DIA reports in the near future. Best, Fengchao