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vdemichev / DiaNN

DIA-NN - a universal automated software suite for DIA proteomics data analysis.
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data normalization #886

Open fei2805 opened 6 months ago

fei2805 commented 6 months ago

When using DIA-NN to analyze multiple DIA mass spectrometry data simultaneously, how should the parameters be configured for data normalization?

vdemichev commented 6 months ago

Data normalisation is automatic, so please just follow the guidelines here https://github.com/vdemichev/DiaNN?tab=readme-ov-file#getting-started

fei2805 commented 6 months ago

Thank you for your response. Is the intensity provided in the report (eg. report.pr_matrix.tsv, report.pg_matrix.tsv) LFQ intensity, and can it be directly compared quantitatively? When conducting differential analysis (upregulation/downregulation), is there a need for additional correction of the intensity results?

vdemichev commented 6 months ago

Can use as is

fei2805 commented 6 months ago

Can use as is

Thanks a lot！