InteractionSet

InteractionSet represents and manipulates genomic interaction data from high-throughput assays such as Hi-C (chromatin conformation capture) and ChIA-PET to enable structured storage, annotation, and computational analysis.

Key Features:

• Data Representation: Provides classes specifically designed to represent genomic interactions and to store associated experimental data.
• Low-Level Manipulation: Implements methods for low-level manipulation and processing of interaction data to support detailed analysis.
• Integration with Bioconductor: Leverages Bioconductor infrastructure to interoperate with other Bioconductor packages for downstream analyses.

Scientific Applications:

• Hi-C and ChIA-PET analysis: Enables storage and manipulation of interaction datasets from Hi-C and ChIA-PET experiments to extract biologically relevant insights.
• Method development: Provides foundational data structures and methods that support development of new bioinformatics tools for genomic interaction analyses.

Methodology:

Builds on Bioconductor's established framework to provide classes and low-level methods for representing and manipulating genomic interaction data and to improve interoperability between Bioconductor packages.