Software
Nested Effects Models
The R/Bioconductor package 'nem' reconstructs features of pathways from the nested structure of perturbation effects. It unites the software from several labs and represents the current state-of-the-art in Nested Effects Models.
HTSanalyzeR - Network analysis of high throughput screens
The R/Bioconductor package 'HTSanalyzeR' provides enrichment and network analysis of high-throughput RNAi screens.
dyNet - dynamic network visualization
Java software for dynamic network visualization, manipulation and clustering. Overlaying network attributes on the topology allows to integrate different data sources. Results can be exported in a variety of formats.
CRImage - tumour image analysis
Coming soon! Image analysis for cellularity correction of tumour copy-number profiles. A preliminary developer's version is available at R-Forge.
DANCE
Coming soon! a R/Bioconductor package for Deregulation Analysis of Copy-number and Expression data. Our approach quantifies the impact of copy-number alterations on gene expression and compares it between tumour sub-types.
