Biomarker discovery (Intra-class Analysis)

This operation performs a Biomarker Discovery Analysis on a single Aligned Peak Lists.

Usage

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

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

Data: a single Labeled/Unlabeled Aligned Peak List.

Biomarker discovery (Intra-class Analysis) dialog

Output and visualization

As a result of this operation, a new Labeled/Unlabeled Intersection is added to the clipboard. Every time a new Labeled/Unlabeled Intersection Result is accessible, it can be inspected with the Biomarker Discovery View.

Biomarker Discovery View

This view allows the user to filter out peaks in two modes: individual or group. In the individual mode, there are two types of filter:

Difference: to find those peaks whose intra-strain presence is abnormally different in one sample (in bold) vs. others. user can customize this difference (min) and how many of the remaining samples should be different.
Thresholds: to find those peaks which are present (or not) in one sample (in bold) vs. the others. User can customize the meaning of 'presence' and the meaning of 'absence' (in percentage of replicas).

In the group mode user can directly choose the samples that want 'in' and 'not in', and also changing the meaning of 'in' and 'not in' (in percentage of replicas).

Export results

You can export the results of this view by clicking the button. A dialog will appear allowing you to select the file to save the 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.