GenoVi

GenoVi visualizes circular bacterial and archaeal genomes and integrates COG classification via DeepNOG to support genomic interpretation.

Key Features:

• Automated Circular Genome Visualization: Creates custom circular representations of complete or draft microbial genomes and sequence elements.
• Customizable Options: Provides 25 built-in color palettes including five color-blind-safe palettes and various text formatting options.
• Automatic Scaling: Automatically scales visualizations for genomes and sequence elements with multiple replicons or contigs.
• DeepNOG COG Integration: Integrates Cluster of Orthologous Groups (COG) category analysis using DeepNOG.
• Comprehensive Output Generation: Generates COG histograms, COG frequency heatmaps, and detailed output tables with general statistics for each replicon or contig processed.
• GenBank Input Support: Accepts GenBank annotation files as input, including multiple files within a directory.

Scientific Applications:

• Genome Visualization: Visualization and analysis of single and multiple bacterial and archaeal genomes.
• Replicon Classification: Classification and rapid identification of replicons in large multipartite genomes, exemplified by analyses of Paraburkholderia.
• Functional Categorization: Functional categorization of genes via COG analysis to aid genomic interpretation.

Methodology:

Visualizes genomic features from GenBank annotation files; assigns COG categories via DeepNOG; automatically scales visualizations for each replicon or sequence element; and generates COG histograms, COG frequency heatmaps, and output tables with general statistics.