ImputAccur

ImputAccur assesses genotype-imputation accuracy by computing established imputation quality metrics to inform genome-wide association studies (GWAS) and downstream analyses.

Key Features:

• Accuracy Measures: Calculates established imputation quality metrics including info, Iam-hiQ, and r²-based indices.
• Cross-platform Input Compatibility: Derives accuracy measures from standard output files produced by various imputation software.
• Data Filtering: Supports sample/probe and marker filtering to restrict metric calculations to selected subsets of data.
• Comprehensive Evaluation: Provides multiple complementary metrics to evaluate imputation quality across markers and samples.

Scientific Applications:

• Genome-wide association studies (GWAS): Assess and QC imputed genotypes to ensure reliability of association tests.
• Imputed dataset validation: Evaluate imputation quality per-marker and per-sample to guide inclusion thresholds in downstream analyses.

Methodology:

Computes info, Iam-hiQ, and r²-based indices from standard imputation software output files and applies sample/probe and marker filtering prior to metric calculation.