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Bayesian Robust Inference for Differential Gene Expression bridge

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A package offering test for differentially expressed genes with microarray data. Bridge can be used with both cDNA microarrays or Affymetrix chip. It fits a robust Bayesian hierarchical model for testing for differential expression. Outliers are modeled explicitly using a $t$-distribution. The model includes an exchangeable prior for the variances which allows different variances for the genes but still shrinks extreme empirical variances. Our model can be used for testing for differentially expressed genes among multiple samples, and can distinguish between the different possible patterns of differential expression when there are three or more samples. Parameter estimation is carried out using a version of Markov Chain Monte Carlo that is appropriate when the model puts mass on subspaces of the full parameter space.

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bridge classification

bridge specifications

Software type:
Package/Module
Restrictions to use:
None
Programming languages:
R
Computer skills:
Advanced
Maintained:
Yes
Interface:
Command line interface
Operating system:
Unix/Linux, Mac OS, Windows
License:
GNU General Public License version 2.0
Stability:
Stable

bridge distribution

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