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» Home » Documentation » Tutorials

Tutorials

Tutorials and topics

The following main step-by-step help pages are available:

  • Notes on installing the software
  • Startup and overview of the main software window
  • Running an analysis. General steps, but focusing on the ORA method.
  • Running a gene score resampling analysis.
  • Running a receiver-operator characteristic analysis (ROC).
  • Running a precision-recall analysis.
  • Running a correlation analysis.
  • Exploring analysis results.
  • Multifunctionality diagnostics.
  • Viewing results in detail.
  • Saving and loading result files.
  • Manipulating gene sets.

In addition the following topics are available:

  • Information about gene multifunctionality
  • More information on the tree view
  • How to locate a gene set
  • How genes that occur more than once are handled.
  • How multiple test correction works in ermineJ
  • Speeding up resampling
  • An explanation of how gene set sizes are computed
  • An explanation of how gene set scores are computed

Users who need more than the graphical interface can provide should look at:

  • The ermineJ command line interface (CLI)
  • Programmatic use of ermineJ;  see also the Javadoc.

 

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