MESHI: A new library of Java classes for molecular modeling

Nir Kalisman; Ami Levi; Tetyana Maximova; Dan Reshef; Sharon Zafriri-Lynn; Yan Gleyzer; Chen Keasar

doi:10.1093/bioinformatics/bti630

MESHI: A new library of Java classes for molecular modeling

Nir Kalisman, Ami Levi, Tetyana Maximova, Dan Reshef, Sharon Zafriri-Lynn, Yan Gleyzer, Chen Keasar

Department of Computer Science

Research output: Contribution to journal › Article › peer-review

28 Scopus citations

Abstract

Summary: Adapting a modular and object-oriented approach in the design of molecular modeling packages may reduce the software development barrier between ideas and their programed applications. Towards this goal we developed MESHI, a new, strictly object-oriented, molecular modeling suite written in Java. MESHI provides a comprehensive library of extendable classes for all the essential components of molecular modeling: molecular and geometry elements, energy functions and optimization methods.

Original language	English
Pages (from-to)	3931-3932
Number of pages	2
Journal	Bioinformatics
Volume	21
Issue number	20
DOIs	https://doi.org/10.1093/bioinformatics/bti630
State	Published - 1 Jan 2005

ASJC Scopus subject areas

Statistics and Probability
Biochemistry
Molecular Biology
Computer Science Applications
Computational Theory and Mathematics
Computational Mathematics

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10.1093/bioinformatics/bti630

Cite this

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title = "MESHI: A new library of Java classes for molecular modeling",

abstract = "Summary: Adapting a modular and object-oriented approach in the design of molecular modeling packages may reduce the software development barrier between ideas and their programed applications. Towards this goal we developed MESHI, a new, strictly object-oriented, molecular modeling suite written in Java. MESHI provides a comprehensive library of extendable classes for all the essential components of molecular modeling: molecular and geometry elements, energy functions and optimization methods.",

author = "Nir Kalisman and Ami Levi and Tetyana Maximova and Dan Reshef and Sharon Zafriri-Lynn and Yan Gleyzer and Chen Keasar",

note = "Funding Information: While most of the code is original, it was written under the inspiration of the packages written by Ron Elber, Michael Levitt, Jeffery Skolnick and Andrzej Kolinski that C.K. was advantageous to study, use and manipulate. Eitan Domany{\textquoteright}s support was invaluable. C.K. is a Ralph Selig Career Development Chair in information theory, N.K. is supported by the Kreitman Foundation. The EU 6th Framework Program is gratefully acknowledged for support to the GeneFun project, contract No: LSHG-CT-2004-503567. S.Z.L. was supported by the Israeli Ministry of Science.",

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doi = "10.1093/bioinformatics/bti630",

language = "English",

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T2 - A new library of Java classes for molecular modeling

AU - Kalisman, Nir

AU - Levi, Ami

AU - Maximova, Tetyana

AU - Reshef, Dan

AU - Zafriri-Lynn, Sharon

AU - Gleyzer, Yan

AU - Keasar, Chen

N1 - Funding Information: While most of the code is original, it was written under the inspiration of the packages written by Ron Elber, Michael Levitt, Jeffery Skolnick and Andrzej Kolinski that C.K. was advantageous to study, use and manipulate. Eitan Domany’s support was invaluable. C.K. is a Ralph Selig Career Development Chair in information theory, N.K. is supported by the Kreitman Foundation. The EU 6th Framework Program is gratefully acknowledged for support to the GeneFun project, contract No: LSHG-CT-2004-503567. S.Z.L. was supported by the Israeli Ministry of Science.

PY - 2005/1/1

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N2 - Summary: Adapting a modular and object-oriented approach in the design of molecular modeling packages may reduce the software development barrier between ideas and their programed applications. Towards this goal we developed MESHI, a new, strictly object-oriented, molecular modeling suite written in Java. MESHI provides a comprehensive library of extendable classes for all the essential components of molecular modeling: molecular and geometry elements, energy functions and optimization methods.

AB - Summary: Adapting a modular and object-oriented approach in the design of molecular modeling packages may reduce the software development barrier between ideas and their programed applications. Towards this goal we developed MESHI, a new, strictly object-oriented, molecular modeling suite written in Java. MESHI provides a comprehensive library of extendable classes for all the essential components of molecular modeling: molecular and geometry elements, energy functions and optimization methods.

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MESHI: A new library of Java classes for molecular modeling

Abstract

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