During the statistical analysis one third of detected ions is eliminated

[Ewelina]

The list of 15 000 ions detected in 18 samples is inserted to the statistical analysis mode of MetaboAnalyst software. At the beginning it shows that it detects all the ions but during further analysis (fold change, T-test) it shows the result for only 10 000 ions. Moreover, I don’t know which ions with which criteria are eliminated. I need an advice how to get the results for all the ions that were detected in the samples.

[jeff.xia]

You don’t and should not use all features for statistical analysis

“Which ions with which criteria” => All the steps and information are provided on the Data Filtering page (see below)