October 18, 2010
We are pleased to announce Bioconductor 2.7, consisting of 419 software packages. There are 34 new packages, and many updates and improvements to existing packages. Bioconductor 2.7 is compatible with R 2.12.0, and is supported on Linux, 32- and 64-bit Windows, and Mac OS. Visit
for details and downloads.
To install Bioconductor 2.7:
Install R 2.12.0. Bioconductor 2.7 has been designed expressly for this version of R.
Follow the instructions here:
Please visit http://bioconductor.org for details and downloads.
There are 34 new packages in this release of Bioconductor.
Analysis of aCGH experiments using parallel computing and ff objects
Methods to find gene expression modules representing drivers in Kauffman’s Attractor Landscape
Bayesian Hierarchical Clustering
Functional analysis of biological networks
Case-control studies in genetic epidemiology
Coordinated Gene Activity in Pattern Sets
Analysis of co-knock-down RNAi data
Classify cells and calculate tumor cellularity
Two-sample tests on a graph
Factor Analysis for Bicluster Acquisition
Factor Analysis for Robust Microarray Summarization
Generally Applicable Gene-set Enrichment for Pathway Analysis
Design gene based on both mRNA secondary structure and codon usage bias using Genetic algorithm
Network and gene set enrichment analysis pipeline for high throughput screens.
Analysis of high-throughput microscopy-based screens
Bayesian Hierarchical Modeling of ChIP-seq Data Through Hidden Ising Models
A graphical user interface to dose-response analysis of microarray data
Identifying Loci of Enhanced Significance in Tiling Microarray Data
LVS normalization for Agilent miRNA data
Model-based Background Correction for Beadarray
MeDIP-Seq data analysis
Differential expression and false discovery rate calculation through multiple comparison
Functional network analysis
Predict gene network using an Ordinary Differential Equation (ODE) based method
Nucleosome positioning prediction
Deals with OTU data
Patient-oriented gene-set analysis
Import and analyze data from Roche’s Genome Sequencer System.
Display and manipulate graphs in Cytoscape
Nonlinear dimension reduction with Isomap and LLE.
Interface to the MAPPER database of transcription factor binding sites
rnaSeq analyses using xmapcore database
Add-on to Standardized Qualitative Dynamical Systems software for the logical models approach to analysis of complex dynamic systems
The Bioconductor web site underwent significant changes during the last release cycle. The web site includes extensive help resources for both users and package developers, in addition to information on package installation. One particularly useful feature in navigating the large numbers of available packages is the updated biocViews widget