pyHiM

pyHiM reconstructs chromatin organization from multiplexed DNA-FISH imaging to enable spatially resolved, single-cell analysis of genomic loci.

Key Features:

• Modular architecture: Uses a modular design that allows independent execution or customization of analysis steps according to sample requirements and available computing resources.
• Multiplexed DNA-FISH data analysis: Processes multiplexed DNA-FISH imaging data as the input basis for spatial genomics analyses.
• Chromatin trace reconstruction: Reconstructs chromatin traces within individual cells to capture single-cell spatial organization of genomic loci.

Scientific Applications:

• Chromatin organization: Characterizing chromatin organization and the spatial arrangement of genomic loci at single-cell resolution.
• Cellular heterogeneity: Investigating cell-to-cell heterogeneity in chromatin conformation.
• Spatial genomic interactions: Analyzing spatial interactions between genomic elements within their native cellular context.
• Translational studies: Supporting translational research aimed at understanding disease-related changes in chromatin architecture.

Methodology:

Reconstructs chromatin organization from multiplexed DNA-FISH imaging data using modular analysis steps that can be executed or customized per sample and computational resources.