EMMAWiki

EMMA 2 Overview Page

EMMA 2 - A MAGE-compliant system for storage and analysis of microarray data

EMMA 2 is a web-based system for management and analysis of transcriptomic data. EMMA 2 allows mapping of gene expression data onto proteome data or pathways and vice versa. It provides extensible analysis and visualization Plug-Ins via the R-language. EMMA 2 now supports the MAGE-ML XML-language for the interchange of microarray data. With EMMA you can do normalization of single and multiple microarrays and run statistical tests for inferring differrentially expressed genes. You can also run cluster analysis to find co-regulated genes.

• Step by Step tutorial for complete beginners
• Common problems: change your password or request a new one

Please have a look at the EMMA info website for general information.

If you have problems accessing EMMA due to a certificate error please have a look at these pages: Webbrowsers and certificate errors

• Terms and Concepts
  • For Users
  • For Developers

Documentation

• Web Documentation
  • General Usage
  • HowTos
  • Help System
  • Online Help
  • Analysis Functions
• QuickStart Documentation (PDF)
• EMMA guidelines
• A little more in-depth description of EMMA and microarray analysis in general
• Core Documentation (Functionality of the main backend and executable scripts)
• Developer Documentation
  • Getting Started
  • API Documentation
  • Building the Heatmap Viewer
  • Developing Plugins
  • Using the SOAP Web Service
  • MAGE-ML Exporter Generator
• Administrator Documentation(Installation, project configuration and account management)
  • SoftwareRequirements
  • InstallationInstructions
  • ProjectSetup
  • Arraylayout Guideline - conventions and definitions
• FAQs
• HowTos
  • LoggingIn
  • Creating An Experiment
  • ImportingData
  • Using the Dataset Browser
  • Emma Bridge How To
  • MAGE-ML Export

General

• News And Updates

Other Issues

EMMA 2 is a free software and is distributed under the GNU General Public License (GPL). For more information about project setup, license, demo project, guided tour, workshops and PDF documentation, please go to the EMMA website.

• Software Disclaimer

Contact

Please send help requests, bug-reports and feature requests, or account requests to the EMMA mailinglist

List of EMMA developers

• Michael Dondrup
• Stefan Albaum
• Sebastian Jünemann
• Thasso Griebel
• Tim Kahlke
• Felix Tille
• Manuel Stein
• Kolja Henckel
• Kai Runte]
• Dominik Mertens
• Alexander Goesman

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(C) Daniel Koch

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Copyright (C) 2011, Center for Biotechnology, Bielefeld University