Home ·
Classes ·
Annotated Classes ·
Modules ·
Members ·
Namespaces ·
Related Pages
Filters ProteinIdentification engine results by different criteria.
This tool is used to filter the identifications found by a peptide/protein identification tool like Mascot©. The identifications can be filtered by different criteria.
-
peptide significance threshold:
This parameter specifies which amount of the significance threshold should be reached by a peptide to be kept. If for example a peptide has score 30 and the significance threshold is 40, the peptide will only be kept by the filter if the significance threshold fraction is set to 0.75 or lower.
-
protein significance threshold:
This parameter behaves in the same way as the peptide significance threshold fraction parameter. The only difference is that it is used to filter protein hits.
-
peptide score:
This parameter specifies which score a peptide should have to be kept.
-
protein score:
This parameter specifies which score a protein should have to be kept.
-
peptide seqences:
If you know which proteins are in the measured sample you can specify a FASTA file which contains the protein sequences of those proteins. All peptides which are not a substring of a protein contained in the sequences file will be filtered out.
-
rt_filtering:
To filter identifications according to their predicted retention times you have to set this flag. You can set the used significance level by setting the 'p_value' parameter.
This filter can only be applied to IdXML files produced by RTPredict.
-
exclusion peptides:
For this option you specify an IdXML file. All peptides that are present in both files (in-file and exclusion peptides file) will be dropped.
-
best hits only:
Only the best hit of a spectrum is kept. If there is more than one hit for a spectrum with the maximum score, then none of the hits will be kept.
-
best_n_peptide_hits:
Only the best n peptide hits of a spectrum are kept.
-
best_n_protein_hits:
Only the best n protein hits of a spectrum are kept.
Generated Tue Apr 1 15:36:39 2008 -- using doxygen 1.5.4 |
OpenMS / TOPP 1.1 |