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Introduction

This page describes the functionality provided by the MouseBIRN Atlasing Toolkit (MBAT) application. It is developed as a bioinformatics framework to query and compare data from Mouse BIRN data sources and perform analysis in context of digital atlases. MBAT provides following functionalities to the users:

• Query a range of data sources based on keyword/query term.
• Compare and analyze the data obtained from these sources.
• Perform analysis of the data using information supplemented from a digital atlas.
• Upload data to a selected data source.
• Provide an API that can be extended easily to add new data sources or new tools for analysis.

Functionality is divided into following 5 workspaces:

• Welcome workspace
• Search workspace
• Viewer workspace
• Registration workspace
• Upload workspace.

Please note that MBAT API users can develop new plugins and add these to the MBAT application. Following sections describe the functional specification for the core MBAT application.

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Functional Specifications

This section describes the functional specifications for every component in MBAT application.

Initialization sequence

On starting the application, following actions are performed:

• Display the name and version of the software.
• Display a wallpaper selected randomly from a set of images.
• Following nested menu structure is displayed:
  • File
    • Open
      • Cart
      • Workspace (disabled)
    • Save
      • Cart
      • Workspace (disabled)
      • Export as image (disabled)
  • Workspaces
    • Welcome Workspace
    • Search Workspace
    • Viewer Workspace
    • Registration Workspace
    • Upload Workspace
  • View
    • Cart
  • Help
    • MBAT Homepage
    • About
• 'Welcome workspace' option is selected by default under the 'Workspaces'
• On clicking a workspace from the 'Workspaces' menu, corresponding workspace's panel is displayed.
• On selecting View > Cart menu option, Cart Manager docking window is displayed.
• On selecting Help > MBAT Homepage, the application launches a web browser window and directs the user to http://cms.loni.ucla.edu/mbat/
• On selecting Help > About, a popup window is displayed. Following tabs are displayed in this window:
  • About: Displays information about partner institutions.
  • Credits: Displays credits information for the MBAT core application.
  • Plugin Credits: Displays credits information for the plugins. The plugin developers can display their own information on this page by providing the information in the plugin.xml for their plugin.
  • License: Displays license related information for MBAT usage.
  • 3rd party: Displays licenses related information for different software libraries used in MBAT
  • System: Displays system parameters information

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Functional specifications for individual workspaces can be found at following links:

• • Welcome workspace
  • Search workspace
  • Viewer workspace
  • Registration workspace
  • Cart manager
  • Graph manager
  • File Menu options

NikhilSane^? - 27 Jan 2009