ggbio

ggbio visualizes genomic annotations and high-throughput sequencing data to enable exploration and analysis of genome structure, sequence alignments, and splicing patterns.

Key Features:

• Modular Framework: Provides a modular framework that enables systematic construction of genomic plots.
• Integration with Bioconductor: Integrates with Bioconductor data structures to generate plots directly from Bioconductor datasets.
• Diverse Plotting Capabilities: Supports detailed views of genomic regions, summary views of sequence alignments and splicing patterns, and genome-wide overviews via karyograms, circular plots, and grand linear representations.
• Statistical Functionality: Leverages R's statistical capabilities to provide analytical summaries within visualizations.

Scientific Applications:

• Genomic Region Analysis: Enables examination of gene expression, mutations, and other genomic features at specific loci.
• Sequence Alignment Studies: Aids visualization of sequence alignments for comparative genomics and evolutionary studies.
• Splicing Pattern Exploration: Summarizes splicing patterns to investigate alternative splicing events and their biological implications.

Methodology:

Leverages the grammar of graphics within R combined with Bioconductor's data handling capabilities.