iNucs

iNucs analyzes nucleosome-nucleosome interaction data to quantify and characterize mesoscale chromatin organization from ligation-junction pairs and nucleosome genomic coordinates.

Key Features:

• Integration with Pairtools: Processes ligation junctions provided in pairs format generated by Pairtools.
• Nucleosome-resolved interaction identification: Accepts nucleosome genomic coordinates and identifies interactions between individual nucleosomes.
• Interaction counting: Computes counts of nucleosome-nucleosome interactions from pairs-format data.
• Visualization capabilities: Produces visualizations of nucleosome-nucleosome interaction data to aid interpretation of chromatin structure.

Scientific Applications:

• Chromatin mesoscale organization: Enables mesoscale description of chromatin organization by elucidating nucleosome-nucleosome contacts.
• Gene regulation and epigenetics: Supports studies linking nucleosome interactions to gene regulatory and epigenetic mechanisms.
• Cellular differentiation: Facilitates analysis of chromatin organization changes relevant to cellular differentiation processes.

Methodology:

Processes ligation-junction pairs format (from Pairtools), accepts nucleosome genomic coordinates, and computationally identifies and counts nucleosome-nucleosome interactions and generates corresponding visualizations.