Biomarker discovery (Inter-class Analysis)

This operation performs a Biomarker Discovery Analysis on a Labeled Aligned Peak List set.

Usage

You can execute this operation by clicking the button or following the menu Analysis/Biomarker discovery (Inter-class Analysis).

A dialog will appear allowing you to select the following options:

• Labeled Matched Peak List: you have to select two or more Labeled Matched Peak Lists contained in the same Labeled Matched Peak List Set.

Output and visualization

As a result of this operation, a new Inter Labeled Intersection is added to the clipboard. Every time a new Inter Labeled Intersection is accessible, it can be inspected with the Biomarker Discovery View. This view has presents three tabs: (i) the analysis tab, (ii) the intra-strain matching tab and (iii) the inter-strain matching tab.

The analysis tab shows a matrix where columns are the samples and rows are the peaks. For each peak (row) there two extra columns: its p and q-values. Each cell value represents the percentage of presence of the row peak in the column sample.

Using the presence/absence thresholds the user can modify the meaning of absence (by default it is 0%) and presence (by default it is 100%). Changing this values may affect the discriminant power of the peaks.

The intra-strain tab has, at the same time, one tab per sample in the Labeled Matched Peak List used. A chart and a matching table is generated for each sample, showing a table with the peaks of each replicates.

The inter-strain tab shows a a matrix where the rows are all the peaks present in all the samples of the dataset and the columns are all the samples of the dataset.

Export results

You can export the data tables by clicking the right-corner button of the tables () and choosing the "Export to CSV" option. You can find more information about this at section Export results.

You can also select the entire table (by pressing keys CTRL+A) or a specific range of cells and copy its contents by pressing keys CTRL+C. Then, you can paste this information in any other programs such as calc sheets or text editors, either pressing keys CTRL+V or the software specific options.