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Visualize

Overview

Visualize is a workstation based tool that allows the user to visualize and analyze proteomics data in the .ez2 format produced by ViPDAC (Virtual Proteomics Data Analysis Cluster), the MAPW (MCW Automated Proteomics Workflow) or the Epitomize program.  In addition to being able to view the protein, peptide and spectral data, the user can carry out analysis of modifications, cleavage sites, amino acids.  Protein lists can be annotated using included databases (GO, KEGG, serum, membrane and mitochondrial proteins) as well as using user generated lists.  Results from multiple .ez2 files can be combined both between experiments and for the same experiment from searches using different parameters or algorithms. Visualize can also compare results from multiple files and quantitate using either spectral counting or SILAC using the SPeCtRA method.   Results can be exported in a number of different formats including a journal report format. 

Installation Instructions

Visualize is provided in 3 forms:

  • visualize_X.XX_basic_setup.exe
    The basic installer version performs a standard Windows installation of Visualize, including addition to the Start Menu and association of the .ez2 file type with the Visualize program. This installation requires local administrator privileges.

  • visualize_X.XX_pro_setup.exe
    The pro installer version performs a standard Windows installation of Visualize, including addition to the Start Menu and association of the .ez2 file type with the Visualize program. In addition, it includes supplementary databases that map UniProt IDs to GO and KEGG data (human and rodent) and data required for membrane and mitochondrial protein analysis (human and rat). This installation also requires local administrator privileges.

  • visualize_X.XX_basic.zip
    This .zip file contains the Visualize program and splash screen graphic.  These two items need to be placed in the same folder. The program can be run without installation and does not require any administrator privileges.

  • visualize_data.zip
    This .zip file contains the same supplementary databases as the pro setup file.  These files should be placed in the same folder as the Visualize Program.

  • visualize_XXX.pdf
    PDF file containing help for Visualize

  • sample_data.ez2
    Sample data to explore the functions of Visualize with.