linkSet
Bioc currentBase Classes for Storing Genomic Link Data
Release Lineage
Entered 3.22 · Oct 30, 2025
Current · Requires R 4.6
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.
None published for Bioconductor
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6 development-tooling and community-health practices detected across 3 families in the upstream repository
Checks run against github.com/gilberthan1011/linkset on 2026-10-18.
GitHub Pages site last deployed 2025-01-31 · The repository has a site deploy workflow
Topics
People
- Gilbert Han author maintainer
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Cite this package
Run in R for the authors' preferred citation:
citation("linkSet")This is what citation() produces when a package has no citation file of its own. If it prints something else, use that.
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