pophelper

pophelper parses outputs from population assignment programs and produces tabular summaries, barplot visualizations, CLUMPP-compatible alignment files, and estimates of the optimal number of genetic clusters (K) using the Evanno method to support population structure and admixture analysis.

Key Features:

• Data Parsing and Tabulation: Parses output files from population assignment software and transforms results into organized tabular formats.
• Estimation of K (Evanno Method): Estimates the optimal number of genetic clusters (K) using the Evanno method for interpreting population structure.
• Integration with CLUMPP: Generates files compatible with CLUMPP to align cluster solutions across different runs.
• Visualization Capabilities: Produces barplots to visualize genetic data distributions among inferred clusters.
• R Workflow Integration: Integrates into standard R analysis workflows for downstream population structure analyses.

Scientific Applications:

• Genetic cluster identification: Identifies and summarizes genetic clusters for population structure studies.
• Admixture analysis: Supports analysis of historical admixture events shaping genetic diversity.

Methodology:

Parses outputs from population assignment programs, applies the Evanno method to estimate K, generates CLUMPP-compatible alignment files, and creates barplot visualizations.