SpaCEM3: A software for biological module detection when data is incomplete, high dimensional and dependent

Abstract

Summary: Among classical methods for module detection, SpaCEM3 provides ad hoc algorithms that were shown to be particularly well adapted to specific features of biological data: high-dimensionality, interactions between components (genes) and integrated treatment of missingness in observations. The software, currently in its version 2.0, is developed in C++ and can be used either via command line or with the GUI under Linux and Windows environments. © The Author(s) 2011. Published by Oxford University Press.