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Summary of Class Libraries and Other Object Orient
Here is a summary of class libraries and other object oriented
approaches to biopolymer representation.
Molecular Mechanics Toolkit:
Phyton
http://starship.skyport.net/crew/hinsen/mmtk.html
program library for molecular modelling applications
Bioperl Project:
Perl
http://www.techfak.uni-bielefeld.de/bcd/Perl/Bio/welcome.html
handling of biosequence and alignment data
current modules: Bio::PreSeq and Bio::UnivAln
bioWidgets Consortium:
java
http://fruitfly.berkeley.edu/biowidgets/
graphical displays of genome data
NAMD/VMD:
C++
http://www.ks.uiuc.edu/Research/vmd/
Molecular Dynamics and visulatization of biomolecules
Open Molecule Foundation (OMF)
Java
http://www.ch.ic.ac.uk/omf/
several java class libraries and related stuff
PDBlib:
C++
http://www.sdsc.edu/pb/pdblib/pdblib.html
class library is designed for representing macromolecular structure
JaMBW: Java Molecular Biology Workbench
Java
http://www.embl-heidelberg.de/JaMBW/
Birkbeck Bioinformatics Class Library
C++
http://www.cryst.bbk.ac.uk/classlib/
object-oriented software library for use by the bioinformatics and
molecular modelling communities
SCL (Sequence Class Library):
C++
http://Molbiol.grumed.fu-berlin.de/scl/
C++ class library for sequence analysis in molecular biology
OTF (Object Technology Framework):
C++
http://www.cgl.ucsf.edu/home/otf/
C++ classes for biochemical application developers
Democritos:
C++
http://gserv1.dl.ac.uk/CBMT/democ/HOME.html
C++ classes for bioinformatics and computational chemistry
molbio++:
C++
ftp://golgi.harvard.edu/pub/robinson
ftp://ftp.ebi.ac.uk/pub/software/unix
C++ library for molecular biosequence analysis
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