FrogAncestryCalc

FrogAncestryCalc computes population likelihoods from SNP genotype data to infer individual ancestry using allele frequencies from ALFRED and the five Ancestry Inference (AI) panels catalogued in FROG-kb.

Key Features:

• Batch Likelihood Computation: Processes multiple individuals concurrently to calculate the likelihood that each genotype profile originates from specific reference populations.
• Integration with FROG-kb and ALFRED: Uses curated allele frequency data from ALFRED and panel definitions catalogued in FROG-kb for population-specific calculations.
• Ancestry Inference Panels: Supports five Ancestry Inference (AI) panels from FROG-kb for selecting SNP sets used in likelihood calculations.
• Probabilistic Genotype Likelihoods: Computes probabilities for each individual's genotype profile across reference populations to derive relative likelihoods of ancestry.

Scientific Applications:

• Forensic genetics: Calculates relative population likelihoods from SNP data to support ancestry inference in forensic casework.
• Population and ancestry research: Enables population-specific genotype analysis for studies of ancestry, population structure, and comparative genetic research.

Methodology:

Computes per-individual genotype probabilities across reference populations by comparing genotypes to selected SNP panels and using allele frequency data from ALFRED to derive population likelihoods; supports batch processing of multiple individuals.