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This is a repo for codes to simulate trans-grabbing loop extrusion factors (developed by Andrea Bonato)
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Instruction on setting up a VScode project of sycl on a Linux system (ubuntu)
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Here you will find the c++ codes and LAMMPS scripts to run simulations of the topological relaxation of bead-spring polymers (which are initially knotted) by the action of a simulated TopoII protein.
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Codes to simulate condensins and loop extruders that can grab polymer segments in 3D. Developed by Andrea Bonato
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Codes to simulate recoloring of a polymer based on competing epigenetic marks.
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