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bioconductor-linkset

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Base Classes for Storing Genomic Link Data

Installation

To install this package, run one of the following:

Conda
$conda install bioconda::bioconductor-linkset

Usage Tracking

1.0.0
1 / 8 versions selected
Downloads (Last 6 months): 0

Description

Provides a comprehensive framework for representing, analyzing, and visualizing genomic interactions, particularly focusing on gene-enhancer relationships. The package extends the GenomicRanges infrastructure to handle paired genomic regions with specialized methods for chromatin interaction data from Hi-C, Promoter Capture Hi-C (PCHi-C), and single-cell ATAC-seq experiments. Key features include conversion from common interaction formats, annotation of promoters and enhancers, distance-based analyses, interaction strength metrics, statistical modeling using CHiCANE methodology, and tailored visualization tools. The package aims to standardize the representation of genomic interaction data while providing domain-specific functions not available in general genomic interaction packages.

About

Summary

Base Classes for Storing Genomic Link Data

Last Updated

Mar 2, 2026 at 21:38

License

MIT + file LICENSE

Supported Platforms

noarch