Samm: Systems architecture of molecular memory

These R scripts were used to perform an analysis of RNA-seq data with a three-dimensional experimental design (treatment, time point, tissue), as described the following publication:

Elisabeth Georgii, Karl Kugler, Matthias Pfeifer, Elisa Vanzo, Katja Block, Malgorzata A. Domagalska, Werner Jud, Hamada AbdElgawad, Han Asard, Richard Reinhardt, Armin Hansel, Manuel Spannagl, Anton R. Schäffner, Klaus Palme, Klaus F.X. Mayer, Jörg-Peter Schnitzler. The systems architecture of molecular memory in poplar after abiotic stress.

To get started, please follow the steps in run_samm.R.