From SysbioWiki

Contents 1 Projects 2 Software from our group 3 Software Development 4 Documents 5 Bayesian Network software from others 6 Handy Resources

Projects

• Microchemostat
• MiniTUBA: An environment for learning dynamic Baysian networks
• Marimba: An environemnt for creating static Baysian networks from gene expression data and comparing it with known pathways.
• pebl: A generic platform for Bayesian network learning in Python
• Bubble: User interfaces for PEBL
• BINViz: Graphical environment in Javascript
• Markit: A Bayesian biomarker detection tool
• GAIQ: Gene Annotation & Information Query project offers gene annotation and category analysis

Software from our group

• Bayesian Network Data and Software from Woolf et. al. in Bioinformatics, 2005
• GPCR dimerization simulation software from Biophysical Chemistry 2003 & Journal of Theoretical Biology 2004
  • Movies of the simulation results are here!
• GPCR desensitization simulation software from Biophysical Journal 2003
• poolHiTS - A Shifted Transversal Design pooling strategy for High-Througput Drug Screening (associated paper)

Software Development

• Subversion

Documents

• Thesis: Woolf, P. J.(2002) "Computational Analysis of G-Protein Coupled Receptor Screening, Dimerization, and Desensitization"

Bayesian Network software from others

• Monet: A cytoscape plugin
• open bayes: python engine for inference on and of networks
• ARACNE

See the ToolsSurvey page for notes about Bayesian Network tools.

Handy Resources

• Dos to unix returns : tr -s "\r" "\n" < dos.txt > unix.txt
• some nice software links