Literature DB >> 15089659

Flat histogram version of the pruned and enriched Rosenbluth method.

Thomas Prellberg1, Jarosław Krawczyk.   

Abstract

In this Letter we present a flat histogram algorithm based on the pruned and enriched Rosenbluth method. This algorithm incorporates in a straightforward manner microcanonical reweighting techniques, leading to "flat histogram" sampling in the chosen parameter space. As an additional benefit, our algorithm is completely parameter free and, hence, easy to implement. We apply this algorithm to interacting self-avoiding walks, the generic lattice model of polymer collapse.

Entities:  

Year:  2004        PMID: 15089659     DOI: 10.1103/PhysRevLett.92.120602

Source DB:  PubMed          Journal:  Phys Rev Lett        ISSN: 0031-9007            Impact factor:   9.161


  16 in total

1.  Simulations corroborate telegraph model predictions for the extension distributions of nanochannel confined DNA.

Authors:  Aditya Bikram Bhandari; Kevin D Dorfman
Journal:  Biomicrofluidics       Date:  2019-08-08       Impact factor: 2.800

2.  Simulations of knotting of DNA during genome mapping.

Authors:  Aashish Jain; Kevin D Dorfman
Journal:  Biomicrofluidics       Date:  2017-04-11       Impact factor: 2.800

3.  Modeling the relaxation of internal DNA segments during genome mapping in nanochannels.

Authors:  Aashish Jain; Julian Sheats; Jeffrey G Reifenberger; Han Cao; Kevin D Dorfman
Journal:  Biomicrofluidics       Date:  2016-10-13       Impact factor: 2.800

4.  Distribution of label spacings for genome mapping in nanochannels.

Authors:  D Ödman; E Werner; K D Dorfman; C R Doering; B Mehlig
Journal:  Biomicrofluidics       Date:  2018-06-25       Impact factor: 2.800

5.  Interplay between chain stiffness and excluded volume of semiflexible polymers confined in nanochannels.

Authors:  Abhiram Muralidhar; Douglas R Tree; Yanwei Wang; Kevin D Dorfman
Journal:  J Chem Phys       Date:  2014-02-28       Impact factor: 3.488

6.  Mixed confinement regimes during equilibrium confinement spectroscopy of DNA.

Authors:  Damini Gupta; Julian Sheats; Abhiram Muralidhar; Jeremy J Miller; Derek E Huang; Sara Mahshid; Kevin D Dorfman; Walter Reisner
Journal:  J Chem Phys       Date:  2014-06-07       Impact factor: 3.488

7.  Hairpins in the conformations of a confined polymer.

Authors:  E Werner; A Jain; A Muralidhar; K Frykholm; T St Clere Smithe; J Fritzsche; F Westerlund; K D Dorfman; B Mehlig
Journal:  Biomicrofluidics       Date:  2018-03-09       Impact factor: 2.800

8.  Automatic error control during forward flux sampling of rare events in master equation models.

Authors:  Max C Klein; Elijah Roberts
Journal:  J Chem Phys       Date:  2020-01-21       Impact factor: 3.488

9.  Extension of DNA in a nanochannel as a rod-to-coil transition.

Authors:  Douglas R Tree; Yanwei Wang; Kevin D Dorfman
Journal:  Phys Rev Lett       Date:  2013-05-13       Impact factor: 9.161

10.  Is DNA a Good Model Polymer?

Authors:  Douglas R Tree; Abhiram Muralidhar; Patrick S Doyle; Kevin D Dorfman
Journal:  Macromolecules       Date:  2013-10-22       Impact factor: 5.985

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