HLRnet.com:
New teaching software:
Biology and anatomy
New software: Biology and anatomy
Computational
biology tools from Microsoft Research's Machine Learning and Applied
Statistics group: PhyloD (Phylogeny-Based Association Analysis),
Epitope Prediction, HLA Assignment, HLA Completion
http://www.codeplex.com/MSCompBio - BALLView is an extensible viewer for
bio-molecular structures. It provides all standard models and offers
rich functionality for molecular modeling and simulation, including
molecular mechanics methods (AMBER, CHARMM, and MMFF94 force fields),
continuum electrostatics methods employing a Finite-Difference Poisson
Boltzmann solver, secondary structure calculation, molecular editing
and docking. Since BALLView is based on BALL (the Biochemical
ALgorithms Library), it is easily extensible on the level of C++ code.
In addition, it provides a Python interface with Integrated Development
Environment features to allow interactive rapid prototyping.
http://freshmeat.net/projects/ballview/
- Bioclipse is a rich-client platform chemistry and
biology workbench. It provides access to many open source
bioinformatics and chemoinformatics toolkits and has plugins for the
Chemistry Development Kit, JChemPaint, Jmol, and BioJava.
http://freshmeat.net/projects/bioclipse
- The Biochemical ALgorithms Library (BALL) is a
framework for rapid application development in molecular modeling and
structural bioinformatics. BALL provides an extensive set of data
structures as well as classes for molecular mechanics, advanced
solvation methods, comparison and analysis of protein structures, file
import/export, NMR shift prediction, and visualization. Its
extensibility results from an object-oriented and generic programming
approach.
http://freshmeat.net/projects/ball
- BALLView is an extensible viewer for bio-molecular
structures. It provides all standard models and offers rich
functionality for molecular modeling and simulation, including
molecular mechanics methods (AMBER and CHARMM force fields), continuum
electrostatics methods employing a Finite-Difference Poisson Boltzmann
solver, and secondary structure calculation. Since BALLView is based on
BALL (the Biochemical ALgorithms Library), it is easily extensible on
the level of C++ code and it has an Python interface to allow
interactive rapid prototyping.
http://freshmeat.net/projects/ballview/
- Wings
Database which manages bird sightings
http://www.versiontracker.com/dyn/moreinfo/win/37667
- The Biochemical ALgorithms Library (BALL) is a
framework for rapid application development in molecular modeling and
structural bioinformatics. BALL provides an extensive set of data
structures as well as classes for molecular mechanics, advanced
solvation methods, comparison and analysis of protein structures, file
import/export, NMR shift prediction, and visualization. Its
extensibility results from an object-oriented and generic programming
approach.
http://freshmeat.net/projects/ball
- BioCoRE is a collaborative work environment for
biomedical research, research management, and training. It features
easy-to-use tools, among them co-authoring papers and other documents,
running applications on supercomputers, sharing molecular visualization
over the Internet, notifying project team members of recent project
changes by email, chatting, keeping a lab book, and other practical
features.
http://freshmeat.net/projects/biocore/
- J-Bird is a record keeping system for observations
of birds. In the parlance of birders, it is bird listing software. It
is oriented toward birding trips. Information recorded includes region,
trip date, locality, keywords, notes, species observed, and notes on
individual species. It can record sightings, produce trip reports,
produce composite lists such as life lists, tally observations by
category, and query sightings. Regional checklists can be built, used
to record sightings, and be included in trip reports. Sightings can be
exported to CSV tables and HTML tables.
http://freshmeat.net/projects/j-bird/
