index - kpeaton/altanalyze_wikitest GitHub Wiki
- 1.1 Program Description
- 1.2 Updates
- 1.3 Implementation
- 1.4 Requirements
- 1.5 Installation
- 1.6 Pre-Processing, External Files and Applications
- 1.7 Help with AltAnalyze
- 2.1 Where to Save Input Expression Files?
- 2.2 Running AltAnalyze from the Graphical User Interface
- 2.3 Running AltAnalyze from the Command-Line
- 2.4 AltAnalyze Analysis Options
- 2.5 Overview of Analysis Results
- 2.6 Additional à la carte Analyses
- 2.7 AltAnalyze Results Viewer
- 3.1 Default Methods
- 3.2 Algorithm Descriptions
- 3.3 Probe Set Filtering
- 3.4 Constitutive and Gene Expression Calculation
- 3.5 Alternative Splicing Prediction
- 3.6 Protein/RNA Inference Analysis
- 3.7 Gene Annotation Assignment
6 Building AltAnalyze Annotation Files
- 6.1 Splicing Annotations and Protein Associations
- 6.2 Building Ensembl-Exon Associations
- 6.3 Extracting UniProt Protein Domain Annotations Overview
- 6.4 Extracting Ensembl Protein Domain Annotations Overview
- 6.5 Extracting microRNA Binding Annotations Overview
- 6.6 Inferring Protein-Exon Associations Overview
- 6.7 Required Files for Manual Update
7 Evaluation of AltAnalyze Predictions