Chromosome polymer simulations and in silico capture experiments
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Apr 16, 2025 - Python
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loop-extrusion
Here are 6 public repositories matching this topic...
High-performance stochastic modeling of DNA loop extrusion interactions
bioinformatics cpp tad biology high-performance dna cpp17 hic loop-extrusion stochastic-model topologically-associated-domains
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Sep 14, 2024 - C++
StripePy recognizes architectural stripes in 3C and Hi-C contact maps using geometric reasoning
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May 19, 2025 - Python
Loop extrusion module with LAMMPS
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Nov 15, 2022 - C++
Analysis scripts and other code written during my time at Penn.
python bash bioinformatics rna-seq r simulation computational-biology chip-seq orca hic bash-scripting bash-tool single-cell-genomics hichip upenn polymer-simulation university-of-pennsylvania loop-extrusion
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Jun 4, 2025 - Jupyter Notebook
Code to model active loop extrusion on chromatin using hybrid MD-MC.
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May 22, 2024 - C
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