QC Plots: examine the quality of the results with Quality Control plots.Validation: inspect and fine tune the validation process.GO Enrichment: perform GO enrichment and find enriched GO terms in your dataset.3D Structure: map the detected peptides and modifications onto corresponding PDB structures.Modifications: get a detailed view of the post-translational modifications in the dataset.Fractions: inspect from which fractions proteins and peptides are likely to come from.
Spectrum IDs: compare the search engine performance and see how the search engine results are combined.The resource was developed as a protein expression database and. Overview: get a simple yet detailed overview of all the proteins, peptides and PSMs in your dataset. Normalized spectral counts 34 were used to represent expression of proteins and peptides.PeptideShaker currently supports nine different analysis tasks: By combining the results from multiple search engines, while re-calculating PTM localization scores and redoing the protein inference, PeptideShaker attempts to give you the best possible understanding of your proteomics data! PeptideShaker is a search engine independent platform for interpretation of proteomics identification results from multiple search engines, currently supporting X!Tandem, MS-GF+, MS Amanda, OMSSA, MyriMatch, Comet, Tide, Mascot, Andromeda and mzIdentML.
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