Metadata-Version: 2.1
Name: OpenMiChroM
Version: 0.0.2
Summary: Open-Michrom lib for chromosome simulations
Home-page: https://ndb.rice.edu/Open-MiChroM
Author: Antonio Bento de Oliveira Junior,Vinicius de Godoi Contessoto
Author-email: antonio.oliveira@rice.edu,contessoto@rice.edu
License: UNKNOWN
Description: `Open-MiChroM <https://www.sciencedirect.com/science/article/pii/S0022283620306185>`_ is a Python library for performing chromatin dynamics simulations and analyses. Open-MiChroM uses the  `OpenMM <http://openmm.org/>`_ Python API employing the `MiChroM (Minimal Chromatin Model) <https://www.pnas.org/content/113/43/12168>`_ energy function. The chromatin dynamics simulations generate an ensemble of 3D chromosomal structures that are consistent with experimental Hi-C maps. Open-MiChroM also allows simulations of a single or multiple chromosome chain using High-Performance Computing in different platforms (GPUs and CPUs).
        
        The chromatin dynamics simulations can be performed for different human cell lines, cell phases (interphase to metaphase), and different organisms from  `DNAzoo <https://www.dnazoo.org/>`_. Chromatin subcompartment annotations are available at the  `NDB (Nucleome Data Bank) <https://ndb.rice.edu/>`_.
        Open-MiChroM package receives the chromatin sequence of compartments and subcompartments as input to create and simulate a chromosome polymer model. Examples of running the simulations and generating the *in silico* Hi-C maps can be found `here <../Tutorials/single_chain.html>`_
        
        
        
Platform: UNKNOWN
Classifier: License :: OSI Approved :: GNU General Public License v3 (GPLv3)
Classifier: Operating System :: OS Independent
Classifier: Programming Language :: Python
Classifier: Programming Language :: Python :: 3
Classifier: Programming Language :: Python :: 3.4
Classifier: Programming Language :: Python :: 3.5
Classifier: Programming Language :: Python :: 3.6
Classifier: Topic :: Software Development :: Libraries :: Python Modules
Classifier: Natural Language :: English
Description-Content-Type: text/x-rst
