Tutorials

ONETOOL is a tool for family-based big data analyses. It implements the properties of well-known existing family data analysis tools and recently developed methods in a computationally efficient manners, so is suitable for analyzing the vast amount of variant data availble from sequencing family members, providing a rich choice of analysis methods for big data from families.

In this tutorial, we provide a guided tour through the main features of ONETOOL. You can read it in HTML or PDF versions.

Input

• Input Data Types
• Input File Types
• SCRIPT file
• Main Data Input Files
  • FAM file
  • PHENO file
  • VCF file
  • BED/BIM file
  • IMPUTE2 file
  • PED/MAP file
• Additinal Input Files
  • PAR file
  • TYP file
  • MERLIN MAP file
  • SET file

InfoQC Ananlysis

• Pedigree Information
• Pedigree Plot
• Mendelian Error Check
• Relatedness Matrix
• Sample Information
• Variant Information

Trait Ananlysis

• Familial Aggregation (Correlation)
• Segregation analysis
• Heritability Estimation

Linkage Ananlysis

• Model-based
• Model-free

Association Ananlysis

• Single variant
• Gene-based (Rare variant)
• Dosage/genotype probability data