ErmineJ documentation
This manual is organized into the following topics:
-
Tutorials
- Software Installation Notes
- Software Startup and Overview
- Running an Analysis: General steps and ORA
- Running an Analysis: Resampling
- Running an Analysis: ROC
- Running an Analysis: Correlation
- Tutorial: Precision-Recall scoring
- Analysis Results
- Multifunctionality diagnostics
- Gene set details
- Saving and Loading Analyses and Projects
- Manipulating Gene Sets
- Multifunctionality
- ErmineJ Tree View
- Locating Gene Sets
- Handling repeated genes
- Multiple Test Correction in ermineJ
- Tips: Speeding up Resampling
- Explanation: Computing Gene Set Sizes
- Explanation: Interpreting Gene Set Scores
- ermineJ API
- ermineJ CLI
- Data file formats
- Frequently asked questions