For description on LCMS Quantitaion you can first read the principles in this page : lcmslabelfreequantitationworkflow

To generate a XIC, right click on the Quantitations Node and select the “Extract Abundances” menu in the popup.

To create the Design of your XIC, drag and drop the identifications from the right panel to the left panel.

If you drop an identification on the XIC Node, a Group and Sample parents nodes will be automatically created.

You can also directly drop on a Group or Sample Node.

You can rename all the design nodes by different ways:

• by typing F2 when a node is selected
• by a long click on a node
• by the right button popup and the menu Rename

We recommand to rename at least the XIC node.

To be able to perform a XIC design, we need to know the source raw files.

Proline try to find in the database the corresponding Raw Files already registered. If a Raw file is not found, the icon shows a '!' and you can display the error by expanding the corresponding node. In this case, you will have to select the Raw File by yourself.

Note: To help you, you can display the peaklist tooltip by overriding the Identifcation Node in the Design Tree.

To select a Raw File, click on the error, and use the following dialog.

You can select directly a file on the disk or a potential corresponding Raw File registered in the database.

When the XIC Design is finished, click on the next button and select the parameters. See lcmslabelfreequantitationworkflow to have more details about the different parameters.

Note : all the parameters are already set with default values.

When the XIC Design has been generated, it is added in the Quantitation Tree. You can display its properties, especially the configuration used, by the right mouse button popup:

You can delete a XIC Design, see how to delidf

You can rename a XIC Design, by clicking on “Rename…” in the popup menu.

You can export the XIC results, see how to export_a_xic