HIDECAN

HIDECAN generates visualizations that summarize genome-wide association studies (GWAS), differential expression analyses, and manually curated candidate genes.

Key Features:

• Multi-analysis integration: Combines results from one or more GWAS and differential expression analyses with manually curated candidate genes in a single visualization.
• Polyploid support: Provides functionalities to facilitate visualization of GWAS results obtained for autotetraploid organisms with the GWASpoly package.
• VIEWpoly integration: Functions as part of the VIEWpoly tool for polyploid data exploration.

Scientific Applications:

• GWAS result visualization: Summarizes genome-wide association study results across all ploidy levels.
• Differential expression analysis visualization: Summarizes differential expression analysis results.
• Candidate gene mapping: Incorporates manually curated candidate genes, such as those extracted from literature, into summary visualizations.
• Autotetraploid organism analysis: Visualizes GWAS results specifically from autotetraploid organisms analyzed with GWASpoly, as demonstrated with potato datasets.

Methodology:

The package is implemented in R and generates integrated visualizations from GWAS and differential expression analysis outputs.