2 Welcome to HelixTree
2.1 Goals for this Chapter
2.2 Recursive Partitioning Primer
2.3 The HelixTree Basic Workflow
2.4 Tutorial 1: Performing the Basic Workflow in GUI Mode
2.4.1 Create a New Project
2.4.2 Import A Data Set
2.4.3 View Imported Data in a Spreadsheet Viewer
2.4.4 Identify the Data Columns to be Used in Analysis
2.4.5 Perform the Analysis
2.4.6 Export Analysis Results for Publishing
2.5 Tutorial 2: Performing the Basic Workflow in Scripting Mode
2.5.1 Scripting Language Basics
2.5.2 The Script Explained
2.5.3 Executing the Script
2.5.4 Comparing the Results
2.6 Tutorial 3: Detailed Guide to a Standard Case/Control Association Study
2.6.1 Association Demo Overview
2.6.2 Discussion of Case/Control Association Studies
2.6.3 SNP Selection
2.6.4 First Stage of Genotyping
2.6.5 Characterizing htSNPs
2.6.6 Second Stage of Genotyping
2.6.7 Looking for Associations with Disease
2.2 Recursive Partitioning Primer
2.3 The HelixTree Basic Workflow
2.4 Tutorial 1: Performing the Basic Workflow in GUI Mode
2.4.1 Create a New Project
2.4.2 Import A Data Set
2.4.3 View Imported Data in a Spreadsheet Viewer
2.4.4 Identify the Data Columns to be Used in Analysis
2.4.5 Perform the Analysis
2.4.6 Export Analysis Results for Publishing
2.5 Tutorial 2: Performing the Basic Workflow in Scripting Mode
2.5.1 Scripting Language Basics
2.5.2 The Script Explained
2.5.3 Executing the Script
2.5.4 Comparing the Results
2.6 Tutorial 3: Detailed Guide to a Standard Case/Control Association Study
2.6.1 Association Demo Overview
2.6.2 Discussion of Case/Control Association Studies
2.6.3 SNP Selection
2.6.4 First Stage of Genotyping
2.6.5 Characterizing htSNPs
2.6.6 Second Stage of Genotyping
2.6.7 Looking for Associations with Disease
