blupADC

blupADC performs comprehensive genetic data analyses for animal and plant breeding, including genomic data format conversion, quality control, genotype imputation, breed composition analysis, pedigree tracing and visualization, relationship matrix construction, and genomic evaluation.

Key Features:

• Genomic Data Format Conversion: Supports conversion between various genomic data formats to enable compatibility across datasets.
• Data Quality Control and Genotype Imputation: Provides quality control procedures and genotype imputation to handle missing or incomplete genetic information.
• Breed Composition Analysis: Enables analysis of breed composition to assess genetic makeup and diversity within populations.
• Pedigree Tracing, Analysis, and Visualization: Offers tools for tracing pedigrees, analyzing lineage data, and visualizing pedigree structures.
• Relationship Matrix Construction: Constructs pedigree-based and genomic-based relationship matrices for evaluating genetic relationships.
• Genomic Evaluation: Performs genomic evaluations to estimate genetic merit for breeding decisions.

Scientific Applications:

• Genomic-era breeding programs: Applied in modern animal and plant breeding programs that incorporate genomic data into selection and evaluation.
• Breeding strategy improvement: Used to support data-driven refinement of breeding strategies.
• Genetic diversity assessment: Employed to evaluate and monitor genetic diversity within breeding populations.
• Selection optimization: Supports optimization of selection decisions through genomic evaluation and relationship assessment.

Methodology:

blupADC is implemented as an R package with performance-critical components in C++ to improve computational efficiency for large-scale genomic datasets.