An introduction to network inference and mining

Basic description of this course

This course is part of a full series of statistics classes, organized by Genotoul - Biostatistics in the INRA of Toulouse during the years 2011, 2012, 2013 and (coming soon) 2015. Its aim is to introduce statistical methods to infer networks from gene expression data and then to analyze them. It is divided into

  • a presentation of the topic (approximately 3 hours);
  • practical applications using the free statistical software environment R R and the free graph visualization platform R .

The course is organized as follows:

  • basic introduction to networks;
  • network inference with a focus on the GGM;
  • graph mining.

The following R packages are used in the applications:

  • mixOmics (to have access to the nutrimouse data set);
  • huge (network inference using GGM, graphical LASSO and relevance network);
  • igraph (working with graphs in R).

Also, the open source graph visualization platform Gephi is used in the applications.

2015 material