Mendel

Mendel performs likelihood-based statistical analysis for gene mapping and association studies, supporting linkage and genome-wide association analyses across pedigree and population genetic data.

Key Features:

• Likelihood-based inference: Implements likelihood-based statistical analysis for genetic data.
• Gene mapping methods: Provides a suite of gene mapping methods including parametric linkage analyses in large pedigrees.
• Genome-wide association: Supports genome-wide association studies (GWAS) including analysis of rare variants.
• Trait support: Analyzes both qualitative and quantitative traits.
• Sample types: Processes pedigree and population samples.
• Marker density: Handles datasets with limited loci as well as dense single nucleotide polymorphism (SNP) data.
• Statistical tests: Implements a comprehensive range of statistical genetic tests, encompassing common methodologies and several novel approaches.

Scientific Applications:

• Parametric linkage mapping: Mapping Mendelian loci in large pedigrees using parametric linkage analysis.
• GWAS and rare-variant association: Identifying associations in genome-wide association studies including rare variant analysis.
• Trait genetics: Dissecting genetic architecture of qualitative and quantitative traits.
• Pedigree and population analysis: Analysis of genetic variation and inheritance in both pedigree and population samples.
• Sparse and dense marker studies: Mapping and association analyses using limited loci datasets and dense SNP arrays.

Methodology:

Uses likelihood-based statistical analysis, parametric linkage analysis, and genome-wide association methods including rare-variant tests.