QCGWAS

QCGWAS automates quality control of genome-wide association study (GWAS) result files as an R package to ensure data integrity for meta-analyses and individual cohort analyses.

Key Features:

• Automation: Automates repetitive QC tasks on GWAS result files.
• Flexibility: Offers customizable QC options to tailor checks to study-specific requirements.
• Scalability: Handles large volumes of GWAS results and multiple cohorts.
• Meta-Analysis Preparation: Performs QC checks including consistency and format validation to prepare input files for meta-analyses.
• Individual Cohort Analysis: Validates GWAS result files within single cohorts to ensure data accuracy and consistency.

Scientific Applications:

• Genetic Epidemiology: Prepares reliable GWAS datasets for genetic epidemiology analyses.
• Large-Scale GWAS Projects: Applies QC at scale in large GWAS projects involving many cohorts.
• Collaborative Meta-Analyses: Harmonizes and validates cohort-level GWAS result files for meta-analyses.

Methodology:

Performs automated checks of GWAS result files for consistency, completeness, and adherence to expected formats to identify errors or anomalies.