Rethinking Metadynamics


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{
  "metadata": {
    "_oai": {
      "id": "oai:materialscloud.org:226"
    }, 
    "title": "Rethinking Metadynamics", 
    "keywords": [
      "enhanced sampling", 
      "free energy", 
      "umbrella sampling", 
      "MARVEL/DD1"
    ], 
    "mcid": "2019.0063/v1", 
    "license": "Creative Commons Attribution 4.0 International", 
    "doi": "10.24435/materialscloud:2019.0063/v1", 
    "_files": [
      {
        "checksum": "md5:38305722d943191a44fa11245bb56863", 
        "key": "README.txt", 
        "size": 299, 
        "description": "basic information"
      }, 
      {
        "checksum": "md5:2ebe995066a46c5b029826699b023ce8", 
        "key": "opes.zip", 
        "size": 502404, 
        "description": "all the input files and scripts to reproduce the results in the paper"
      }, 
      {
        "checksum": "md5:38d00539729a7fcc0e248657137def2e", 
        "key": "figures.zip", 
        "size": 43838822, 
        "description": "all the data used to produce the figures in the paper"
      }
    ], 
    "id": "226", 
    "references": [
      {
        "type": "Preprint", 
        "citation": "M. Invernizzi, M. Parrinello, arXiv (2019)", 
        "comment": "", 
        "url": "https://arxiv.org/abs/1909.07250", 
        "doi": ""
      }
    ], 
    "status": "published", 
    "version": 1, 
    "conceptrecid": "225", 
    "description": "Metadynamics is an enhanced sampling method of great popularity, based on the on-the-fly construction of a bias potential that is function of a selected number of collective variables. In order to improve its usability and convergence speed, we propose here a change in perspective that shifts the focus form the bias to the probability distribution reconstruction. The result is an enhanced sampling method that combine metadynamics and adaptive umbrella sampling approaches, taking the best from the two worlds. This new method has a straightforward reweighting scheme and allows for efficient importance sampling, avoiding uninteresting high free energy regions. Thanks to a compressed kernel density estimation it can handle a higher dimensional collective variable space, and does not require the prior knowledge of the boundaries of such space. The new method comes in two variants. The first aims at a quick convergence, avoiding oscillations and maximizing the quasi-static bias regime, while in the second the main focus is on a rapid exploration of the free energy landscape. We demonstrate the performance of the method in a number of representative examples.", 
    "license_addendum": "", 
    "is_last": false, 
    "owner": 60, 
    "edited_by": 98, 
    "publication_date": "Oct 22, 2019, 00:00:00", 
    "contributors": [
      {
        "familyname": "Invernizzi", 
        "affiliations": [
          "Department of Physics, ETH Zurich c/o USI Campus, 6900 Lugano, Switzerland"
        ], 
        "email": "michele.invernizzi@phys.chem.ethz.ch", 
        "givennames": "Michele"
      }, 
      {
        "familyname": "Parrinello", 
        "affiliations": [
          "Department of Chemistry and Applied Biosciences, ETH Zurich c/o USI Campus, 6900 Lugano, Switzerland"
        ], 
        "email": "michele.parrinello@phys.chem.ethz.ch", 
        "givennames": "Michele"
      }
    ]
  }, 
  "revision": 2, 
  "created": "2020-05-12T13:53:16.836790+00:00", 
  "id": "226", 
  "updated": "2019-10-22T00:00:00+00:00"
}