The Amber Molecular Dynamics Package

Amber is a suite of biomolecular simulation programs. It began in the late 's, and is maintained by an active development community; see our history page and our contributors page for more information. The term "Amber" refers to two things. First, it is a set of molecular mechanical force fields for the simulation of biomolecules (these force fields are in the public domain, and are used in a ...

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ambermd.org was registered 1 decade 6 years ago. It has a alexa rank of #1,396,359 in the world. It is a domain having .org extension. It is estimated worth of $ 960.00 and have a daily income of around $ 4.00. Furthermore the website is generating income from Google Adsense. As no active threats were reported recently, ambermd.org is SAFE to browse.

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128.6.241.202

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40.4959

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-74.4243

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Search Engine Results For ambermd.org

The pmemd.cuda GPU Implementation - Amber Molecular Dynamics

- https://ambermd.org/GPUPerformance.php

24 Mar 2021 ... Amber20: pmemd.cuda performance information · A bit of history.

The pmemd.cuda GPU Implementation - Amber Molecular Dynamics

- https://ambermd.org/GPUSupport.php

10 Jan 2021 ... Information about GPU acceleration in the cpptraj or pbsa ... The fastest academic GPU MD simulation engine, pmemd.cuda, is written and ...

AMBER Info Page - Amber mailing list - Amber Molecular Dynamics

- http://lists.ambermd.org/mailman/listinfo/amber

This is the AMBER Mailing List. It is designed to provide a forum for users of the ...

AMBER - Wikipedia

- https://en.wikipedia.org/wiki/AMBER

Website, ambermd.org. AMBER is used to minimize the bond stretching energy of this ethane molecule. Assisted Model Building with Energy Refinement (AMBER) is a family of force...

AmberMD

- https://amber-md.github.io/

Official website: ambermd.org. Disclaimer: This page is a hook for some AmberMD's projects on github. Documents. ParmEd (docs). Parameter/topology editor ...

AmberTools - NMRbox.org

- https://nmrbox.org/registry/ambertools

... is the workhorse program for molecular dynamics and structure refinements with explicit water or generalized Born solvent models. URL. http://ambermd.org/ ...

Amber Molecular Dynamics · GitHub

- https://github.com/Amber-MD

Amber Molecular Dynamics. For experienced Amber users: development versions of some parts of AmberTools. http://ambermd.org/ · amber@ambermd. org.

AMBER-hub – Tools and information for AMBER

- https://amberhub.chpc.utah.edu/

The official website for AMBER and AMBER-tools is located at ambermd.org. This website provides scripts, examples and tutorials based on day to day work ...

AMBER md (@ambermdprog) | Twitter

- https://twitter.com/ambermdprog

Amber is a suite of biomolecular simulation programs. ambermd.org. Joined January 2014.

ParmBSC1 force-field | Molecular Modeling and Bioinformatics Group

- https://mmb.irbbarcelona.org/www/ParmBSC1

... the parmBSC1 force-field using AmberTools14 (free at https://ambermd.org): ... the parmBSC1 force-field using Gromacs (free at https://www.gromacs.org/):

The Amber Molecular Dynamics Package

- https://ambermd.org/

3 May 2021 ... Amber is a package of programs for molecular dynamics simulations of proteins and nucleic acids.

AMBER | High-Performance Computing

- https://hpc.unt.edu/amber

http://ambermd.org/. Compilation Notes: Compiled using Intel compiler and its MKL math libraries (Parallel Studio 2017). Serial, parallel (INTELMPI), and cuda ...

Home - Professor Ian Gould - Imperial College London

- https://www.imperial.ac.uk/people/i.gould

... been associated with the Molecular Mechanics/ Molecular Dynamics package AMBER (http://ambermd.org), both the software package and the force fields, ...

R: Read AMBER Parameter/Topology files - R-Project.org

- https://search.r-project.org/CRAN/refmans/bio3d/html/read.prmtop.html

... present in the PrmTop file. See the AMBER documentation for a complete list of flags/components: http://ambermd.org/FileFormats.php. Selected components: ...

1 MMPBSA.py

- http://amber.tkanai-lab.org/TutorialA3/py_script/files/MMPBSA_Python_Manual.pdf

Download and installation instructions for mpi4py can be found online at http:// ambermd.org/tutorials/advanced/tutorial3/py_script/compile.htm. After you ...

What kind of hardware works best for the Amber Molecular ...

- https://ask.cyberinfrastructure.org/t/what-kind-of-hardware-works-best-for-the-amber-molecular-dynamics-package/119

Specific GPU hardware is at: http://ambermd.org/GPUHardware.php. Basically most nVIDIA GPUs are excellent, however if you go to relatively old GPUs, newer ...

write.ncdf. bio3d 2.3-0 - Grant Lab

- http://thegrantlab.org/bio3d_v2/html/write.ncdf.html

(2006) Bioinformatics 22, 2695--2696. http://www.unidata.ucar.edu/software/ netcdf/ http://cirrus.ucsd.edu/~pierce/ncdf/ http://ambermd.org/formats.html#netcdf ...

pytraj · PyPI

- https://pypi.org/project/pytraj/1.0.7/

[![Binstar Badge](https://anaconda.org/ambermd/pytraj/badges/version.svg)]( ... A Python front-end of [cpptraj program] (https://github.com/Amber-MD/cpptraj) (a ...

Amber 14 - Case D. A. - ORBi lu

- https://orbilu.uni.lu/handle/10993/16614

Commentary : Software, tutorials and further information at at ambermd.org. There is no file associated with this reference.

amber18 - PLUMED

- https://www.plumed.org/doc-v2.6/user-doc/html/amber18.html

This patch is compatible with the MPI, CUDA and CUDA + MPI versions of pmemd. For more information on amber you should visit http://ambermd.org · doxygen ...

AmberTools 17 — Biskit: python for structural bioinformatics

- http://biskit.pasteur.fr/install/applications/ambertools

We have only tested this on Ubuntu Linux though. Download and install AmberTools binaries: cd /tmp wget http://ambermd.org/downloads/ install_ambertools.sh ...

Amber Phenix :: Anaconda.org

- https://anaconda.org/AmberMD/amber_phenix

conda install. linux-64 v0.9.8; osx-64 v0.9.8. To install this package with conda run: conda install -c ambermd amber_phenix ...

Page Resources Breakdown

Homepage Links Analysis

Page Title of ambermd.org

The Amber Molecular Dynamics Package

Meta Description of ambermd.org

Amber is a package of programs for molecular dynamics simulations of proteins and nucleic acids

Meta Tags of ambermd.org

molecular dynamics, proteins, nucleic acids, biomolecular simulation, peter kollman, david case

Website Inpage Analysis

H1 Headings:	1	H2 Headings:	Not Applicable
H3 Headings:	Not Applicable	H4 Headings:	Not Applicable
H5 Headings:	Not Applicable	H6 Headings:	Not Applicable
Total IFRAMEs:	Not Applicable	Total Images:	5
Google Adsense:	pub-9700140137778662	Google Analytics:	Not Applicable

Two Phrase Analysis

Words	Occurrences	Density	Possible Spam
simulation programs	4	1.216 %	No
force fields	3	0.912 %	No
at the	3	0.912 %	No
the University	3	0.912 %	No
University of	3	0.912 %	No
is a	3	0.912 %	No
Amber is	3	0.912 %	No
biomolecular simulation	3	0.912 %	No
of molecular	2	0.608 %	No
it is	2	0.608 %	No
an active	2	0.608 %	No
in the	2	0.608 %	No
page for	2	0.608 %	No
for information	2	0.608 %	No
the Amber	2	0.608 %	No
DA Case	2	0.608 %	No
Amber biomolecular	2	0.608 %	No
of the	2	0.608 %	No
overview of	2	0.608 %	No
to Amber	2	0.608 %	No

Four Phrase Analysis

Words	Occurrences	Density	Possible Spam
at the University of	3	0.912 %	No
overview of the Amber	2	0.608 %	No
was originally developed under	1	0.304 %	No
Amber was originally developed	1	0.304 %	No
many others Amber was	1	0.304 %	No
others Amber was originally	1	0.304 %	No
originally developed under the	1	0.304 %	No
the leadership of Peter	1	0.304 %	No
under the leadership of	1	0.304 %	No
developed under the leadership	1	0.304 %	No
and many others Amber	1	0.304 %	No
at GSK and many	1	0.304 %	No
at Stony Brook Ross	1	0.304 %	No
Nagan at Stony Brook	1	0.304 %	No
Maria Nagan at Stony	1	0.304 %	No
Stony Brook Ross Walker	1	0.304 %	No
Brook Ross Walker at	1	0.304 %	No
leadership of Peter Kollman	1	0.304 %	No
Walker at GSK and	1	0.304 %	No
Ross Walker at GSK	1	0.304 %	No

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Http-Version: 1.1
Status-Code: 200
Status: 200 OK
Date: Fri, 18 Jun 2021 15:37:04 GMT
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X-Powered-By: PHP/5.6.40
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Content-Type: text/html; charset=UTF-8

Domain Information

Domain Registrar:	Public Interest Registry
Registration Date:	2008-01-03 1 decade 6 years 3 months ago

Domain Nameserver Information

Host		IP Address	Country
ns0.sdsc.edu		132.249.20.25	United States
ns1.sdsc.edu		198.202.75.26	United States

DNS Record Analysis

Host	Type	TTL	Extra
ambermd.org	A	86393	IP: 128.6.241.202
ambermd.org	NS	86400	Target: ns1.sdsc.edu
ambermd.org	NS	86400	Target: ns0.sdsc.edu
ambermd.org	SOA	86400	MNAME: ns0.sdsc.edu RNAME: hostmaster.sdsc.edu Serial: 2019042300 Refresh: 86400 Retry: 14400 Expire: 604800
ambermd.org	MX	86400	Target: mail.ambermd.org
ambermd.org	MX	86400	Priority: 10 Target: mail2.ambermd.org

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Updated Date:
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Registry Expiry Date:
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Ireland
Registrar IANA ID: 2906
Registrar Abuse Contact Email:
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Registrar Abuse Contact Phone:
+353.19020020
Reseller:
Domain Status:
clientTransferProhibited
https://icann.org/epp#clientTransferProhibited
Registrant
Organization: GDPR Masked
Registrant State/Province: GDPR
Masked
Registrant Country: US
Name Server:
NS0.SDSC.EDU
Name Server: NS1.SDSC.EDU
DNSSEC:
unsigned
URL of the ICANN Whois Inaccuracy Complaint Form
https://www.icann.org/wicf/)
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2021-06-18T15:36:10Z

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The pmemd.cuda GPU Implementation - Amber Molecular Dynamics

The pmemd.cuda GPU Implementation - Amber Molecular Dynamics

AMBER Info Page - Amber mailing list - Amber Molecular Dynamics

AMBER - Wikipedia

AmberMD

AmberTools - NMRbox.org

Amber Molecular Dynamics · GitHub

AMBER-hub – Tools and information for AMBER

AMBER md (@ambermdprog) | Twitter

ParmBSC1 force-field | Molecular Modeling and Bioinformatics Group

The Amber Molecular Dynamics Package

AMBER | High-Performance Computing

Home - Professor Ian Gould - Imperial College London

R: Read AMBER Parameter/Topology files - R-Project.org

1 MMPBSA.py

What kind of hardware works best for the Amber Molecular ...

write.ncdf. bio3d 2.3-0 - Grant Lab

pytraj · PyPI

Amber 14 - Case D. A. - ORBi lu

amber18 - PLUMED

AmberTools 17 — Biskit: python for structural bioinformatics

Amber Phenix :: Anaconda.org

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