ggmanh

ggmanh generates customizable Manhattan plots and quantile-quantile (QQ) plots for visualizing Genome Wide Association Study (GWAS) results.

Key Features:

• Manhattan plot generation: The manhattan_plot function creates Manhattan plots for GWAS result visualization.
• QQ plot generation: The qqunif function generates quantile-quantile plots for assessing p-value distributions against a uniform distribution.
• Point thinning: The thinPoints function reduces point density to optimize visualization of large GWAS datasets.
• Customizability: The package maintains flexible plotting options while simplifying plot generation workflow.

Scientific Applications:

• GWAS result visualization: Manhattan plots display association signals across the genome to identify significant loci.
• P-value distribution assessment: QQ plots evaluate whether observed p-values deviate from the null uniform distribution, indicating potential true associations or systematic biases.

Methodology:

The package implements plotting functions built on ggplot2 framework; specific computational algorithms are not detailed in the sources.