title: MESHI: a new library of Java classes for molecular modeling.
abstract: 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.
  
  
  BACKGROUND
  MESHI and its related documentation are freely available at http://www.cs.bgu.ac.il/~meshi; the MESHI API is available at http://www.cs.bgu.ac.il/~meshi/API CONTACT: keasar@cs.bgu.ac.il
  
  
  BACKGROUND
  The Supplementary information includes (1) a detailed description of several key packages and classes, and (2) a brief presentation of results achieved by using the MESHI application--Beautify--in the CASP6 experiment.
authors.affiliation: Department of Computer Science, Ben-Gurion University, Beer-Sheva, Israel.
authors.forename: Nir
authors.initials: N
authors.lastname: Kalisman
authors.forename: Ami
authors.initials: A
authors.lastname: Levi
authors.forename: Tetyana
authors.initials: T
authors.lastname: Maximova
authors.forename: Dan
authors.initials: D
authors.lastname: Reshef
authors.forename: Sharon
authors.initials: S
authors.lastname: Zafriri-Lynn
authors.forename: Yan
authors.initials: Y
authors.lastname: Gleyzer
authors.forename: Chen
authors.initials: C
authors.lastname: Keasar
mesh_terms: D003198:Computer Simulation; D008956:Models, Chemical; D008958:Models, Molecular; D011381:Programming Languages; D011487:Protein Conformation; D011506:Proteins / Q000032:analysis* / Q000737:chemistry*; D020539:Sequence Analysis, Protein / Q000379:methods*; D012984:Software
chemical_list: D011506:Proteins