HelixTree Feature List
Data Import and Management
- Affymetrix GeneChip-compatible™
- Illumina BeadStudio Integration
- Progeny Lab Integration
- Sparse Data Storage Technology (Add-on)
- Project Navigation
Data Quality Control
- Allele and Genotype Frequencies/Counts
- Call Rates
- Hardy-Weinberg Equilibrium P-Value
- Fisher's Exact Test for Hardy Weinberg Equilibrium P-Value
- Signed Hardy Weinberg Equilibrium Correlation R
- Genotype Gender Check
- SNP Concordance
- Filtering Markers
- Haplotype Frequency Estimation
- Inferring Missing Genotype Data
Population Stratification
Genetic Association Analysis
- Genetic Models and Other Genetic Tests
• Basic Allelic Tests
• Genotypic Tests
• Additive Model
• Dominant Model
• Recessive Model - Test Statistics
• Correlation/Trend Test
• Armitage Trend Test
• Exact Form of Armitage Trend Test
• Pearson's Chi-Squared Test
• Fisher's Exact Test
• Odds Ratio with Confidence Limits
• Analysis of Deviance (ANODEV)
• F-Test
Controlling for False Positives
- Bonferroni Adjustments
- False Discovery Rate
- Simes Method
- Single Value Permutations
- Full Scan Permutations
- Carlson SNP Tagging
Advanced Analyses & Gene-Gene/Gene-Environment Interactions
- Haplotype Frequency Estimation
- Haplotype Association Analysis
- Haplotype Trend Regression
- Linkage Disequilibrium
- Multi-Locus Genetic Association Analysis
- Copy Number Association Analysis (Add-on)
- Runs of Homozygosity Association Tests (Add-on)
- Regression Analysis (Add-on)
- Recursive Partitioning (RP)
- Forest of Random Trees Analysis
- Observation Distance Matrix
- Correlation Interaction Analysis
- Multivariate Analysis
