PEAKS
A fully functional proteomics workbench, PEAKS Studio will perform de novo sequencing, protein identification, meta-protein identification (PEAKS inChorus), assisted manual sequencing and data manipulation, either along side PEAKS Online or independently. PEAKS Studio's graphical user interface is slick and easy to use, allowing the beginner to accomplish simple tasks without hesitation, or the advanced user freedom to finish tricky projects on time. PEAKS Studio reads all supported mass-spectrometry data formats, and PEAKS' native ANZ files. Each copy of PEAKS Studio is meant to be installed on a single computer with up to 4 CPUs, and used by one user at a time.
PEAKS Studio
For standard desktop application, PEAKS Studio provides these tools with every license. This ensures researchers always have access to the necessary tools.
| Protein Database Search Engine |  |
| De Novo Sequencing |  |
| Meta Protein Identification Tool |  |
| PEAKS ID | |
| Mascot |  |
| Sequest |  |
| X!Tandem |  |
| OMSSA |  |
| Sequence Reconstruction Solution (SPIDER) |  |
| Segment Match | |
| Non-Gapped Homology Match | |
| Homology Match | |
| PTM Search |  |
| Large Data File Support |  |
| Support public and custom FASTA databases |  |
| Load and Process (RAW) Instrument Data |  |
While most applications on the site apply to PEAKS Studio,
for a condensed summary of the features offered with that software,
visit the PEAKS Studio page.
Quantification 
Researchers with a need for accurate quantification use PEAKS Q (ICAT, iTRAQ, SILAC, N-Terminal Labeling, Label Free, User Defined Labeling) as an optional module for PEAKS Studio.
