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Nesvilab / FragPipe

A cross-platform proteomics data analysis suite
http://fragpipe.nesvilab.org
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Replicates merged #1848

Closed kreitman closed 3 weeks ago

kreitman commented 4 weeks ago

log_2024-10-28_18-13-57.txt

I'm trying to analyze two DIA datasets in the same Workflow and although the DIA-NN quantification tab executes these separately, they are merged in the final peptide.tsv and protein.tsv etc. output files. I'm also unable to locate the .mgf exported file specified in the MSFragger tab. Hopefully this is all simple user error and thanks for your assistance.

fcyu commented 4 weeks ago

The TSV files outside of the diann-output folder are temp files generated during the spectral library building. For the DIA quant result, please use the files in the diann-output folder.

Regarding the mgf file generation, I don't think it works for the DIA data.

Best,

Fengchao