How to perform statistical analysis of label free experiment using results from Proteome Discoverer?

Question

[k2bhide]

Hello,

I would like to know tools to perform ANOVA like statistical test for multiple group comparison based on results from Proteome Discoverer (PD) for label free experiment (version 2.2)

Secondly I would also like to know whether log2 normalized raw abundances generated by PD is preferable to perform statistical analysis or generate LFQ algorithm values to perform statistical analysis.

[eqoa45]

Hello, i'm dealing with the same question. How did you manage your data at the end? I was thinking that I don't need to do any extra processing of the results, since Minora already offers direct quantification and from this I plan to select the differential proteins. What could you suggest?

[Ram]

Do not add answers unless you're actually answering the question. Use Add Comment instead. I've moved your post this time, be careful in the future.