I noticed that after filtering and normalizing the data, I obtained different results compared to the ones I generated using the previous version of MetaboAnalyst. I checked multiple times to make sure I did not change anything, and it seems that I performed the analysis in the same way. What could be the reason for this difference? (I used IQR 10, median normalization, log10 transformation and pareto scaling fyi)
There are many updates between MetaboAnalyst 5.0 and 6.0. In general, the new version is backward compatible. However, there are exceptions especially for large data processing (such as for untargeted metabolomics) in order to evolve with the best practices of the community
Please follow our post requirements. The R command history will also be very useful.