epivizr

epivizr provides interactive visualization and analysis of genomic data by interfacing Bioconductor with the Epiviz web-based genome browser to integrate algorithmic-statistical analyses with iterative data exploration and interpretation.

Key Features:

• Interactive visualization: Interfaces with the Epiviz web-based genome browser to visualize genomic datasets interactively.
• Extensibility: Supports extensions to integrate diverse genomic data types and custom analysis methods.
• Reproducibility: Embeds visualization within Bioconductor workflows to enable reproducible visualizations and analyses.
• Integration with Bioconductor: Connects to the Bioconductor ecosystem to combine advanced statistical analyses with visualization.

Scientific Applications:

• Identifying genetic variants: Visualize genomic regions to support detection and inspection of genetic variants.
• Exploring gene expression patterns: Inspect gene expression patterns across genomic loci and samples.
• Understanding regulatory elements: Examine regulatory elements and their genomic context to support regulatory genomics analyses.
• Hypothesis generation and testing: Enable iterative generation and refinement of hypotheses by linking statistical analyses with interactive visualization.

Methodology:

Connects R/Bioconductor data objects to the Epiviz web-based genome browser using web-based technologies and leverages Bioconductor for advanced statistical analyses.