BioConductor
joda 1.28.0
JODA algorithm for quantifying gene deregulation using knowledge
Released Apr 3, 2011 by Ewa Szczurek
This package cannot yet be used with Renjin it depends on other packages which are not available: bgmm 1.8.3
An older version of this package is
more compatible with Renjin.
Dependencies
Package 'joda' implements three steps of an algorithm called JODA. The algorithm computes gene deregulation scores. For each gene, its deregulation score reflects how strongly an effect of a certain regulator's perturbation on this gene differs between two different cell populations. The algorithm utilizes regulator knockdown expression data as well as knowledge about signaling pathways in which the regulators are involved (formalized in a simple matrix model).