Haploscope

Haploscope visualizes haplotype cluster frequencies and graphical haplotype structures to represent population haplotype variation for comparative genetic analyses.

Key Features:

• Novel Graphical Representation: Graphically represents haplotype frequencies derived from statistical models to depict haplotype structures.
• Population Haplotype Variation: Uses statistical models to analyze population haplotype variation and produce visualizations that reflect genetic diversity and structure.
• Annotation and Inspection Options: Provides annotation and inspection options for haplotypes to support comparisons across subgroups such as isolated subpopulations and case-control groups.

Scientific Applications:

• Population Genetics: Enables visualization and comparison of haplotype structures across populations to study genetic diversity.
• Evolutionary Biology: Supports detection and interpretation of signals of recent positive selection by visualizing haplotype patterns around loci such as LCT.
• Comparative Subgroup Analysis: Facilitates comparison of haplotype distributions between isolated subpopulations and case-control groups.
• Human Genome Diversity Panel Analyses: Has been applied to samples from the Human Genome Diversity Panel to analyze haplotype variation across diverse human populations.

Methodology:

Generates haplotype cluster frequencies using statistical models of population haplotype variation and visualizes these clusters for groupwise comparison.