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Nesvilab / FragPipe

A cross-platform proteomics data analysis suite
http://fragpipe.nesvilab.org
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DIA_spec_diaPASEF DIANN output pg file did not contain protein name #1831

Open singhsk2622 opened 1 month ago

singhsk2622 commented 1 month ago

Hi We ran DIA_spec_diaPASEF workflow and DIA NN output protein group files does not have protein name. However, if i run DIA NN without using FragP PG_output.xlsx ipe then protein group file contains protein name. Could someone tell me if there are some option to select to get protein name in FragPipe? Thanks! best, sachin

fcyu commented 1 month ago

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

Best,

Fengchao

singhsk2622 commented 1 month ago

Thanks for reply. One more request: Is it possible to generate only STY modification in pr output file, currently its generate all the modifcations list in same file. One morething, i see missing in modification output is the location of modification (in protein such this peptide seq is from 234-243 from x protein) and last modification amino acid such as S, T, Y. this help researcher to easily narrow down amino specific modification. In current output, we have to scroll down amino acid seq window to find out what kind of modification are there. If you can consider including this info in future that would be great help for many of us. Thanks for your help best, sachin Proteomics core facility UIO Oslo Norway