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thelauelab's Projects

gene-depth icon gene-depth

Python scripts for calculating depths of peaks in background segments

genome_structure_analysis icon genome_structure_analysis

Analysis code for population and single-cell Hi-C data. Includes functions for calculating "Void" regions, "A/B" compartments and spatial density enrichment.

nuc_dynamics icon nuc_dynamics

Particle dynamics and simulated annealing for chromosome structure calculation

nuc_frames icon nuc_frames

Utilities to help with analysing distances and depths in multiple single-cell Hi-C genome structures.

nuc_processing icon nuc_processing

Chromatin contact paired-read single-cell Hi-C processing module for Nuc3D and NucTools

single_cell_loop_analysis icon single_cell_loop_analysis

Jupyter notebooks analysing potential loop interactions (e.g. Cohesin/CTCF) in single cell Hi-C genome structures.

tiffutil icon tiffutil

Python scripts for working with TIFF stacks

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