ZhangGroup-MITChemistry

ZhangGroup-MITChemistry's repositories

OpenABC

OpenMM implementation of MOFF, MRG-CG, and HPS models.

Language:PythonMIT24 2 1

OpenNucleome

Language:Jupyter NotebookMIT13 1 1

DRAGON

Language:PythonGPL-3.011 40

MOFF

Implementation of MOFF force field. Please cite us at Latham, A; Zhang, B J. Chem. Theory Comput. 2021, 17, 3134. (https://pubs.acs.org/doi/abs/10.1021/acs.jctc.0c01220)

Language:Python9 40

PCCG

Potential Contrasting Coarse-Graining

Language:PythonMIT9 30

chromVAE

variational autoencoder used to analyze chromatin imaging data

Language:Jupyter NotebookGPL-3.04 30

DiploidGenomeOrganization

Language:C++GPL-2.04 20

MOFF-IDP

Language:Python2 20

Chrom_cluster

This is the repository of the core scripts for the chromosome clustering project. It includes two individual folders, which is responsible for 1d extrusion and 3d MD simulation, respectively.

Language:C++1 10