See description of validation algorithm here.

To validate an Search Result:

- Select one or multiple Search Results to validate

- Right Click to display the popup

- Click on “Validate…” menu

In the Validation Dialog, fill the different Parameters :

- you can add multiple PSM Prefilter Parameters ( Rank, Length, Score, e-Value, Identity p-Value, Homology p-Value) by selecting them in the combobox and clicking on Add Button '+'

- you can ensure a FDR on PSM which will reached according to the variable selected ( Score, e-Value, Identity p-Value, Homology p-Value )

- you can add a Protein Set Prefilter on Specitifc Peptides.

- you can ensure a FDR on protein Sets.

- you can set the choice for the Typical Protein of a Protein Set by using a match string with wildcards ( * or ? ) on Protein Accession or Protein Description.

Note : FDR can be used only for Search Results with Decoy Data.

Validating a Search Result can take some time. While it is not finished, the Search Results are shown greyed with an hour glass over them. The tasks are displayed as running in the “Tasks Log Dialog”.

When the validation is finished, the Identification Summaries are displayed with a green icon.