Multiscale embedded gene co-expression network analysis
This is a routine MEGENA pipeline description encompassing from data correlation analysis to module plotting, and is based on version 1.3.6 https://CRAN.R-project.org/package=MEGENA.Please cite the paper below when MEGENA is applied as part of your analysis:
Song W.-M., Zhang B. (2015) Multiscale Embedded Gene Co-expression Network Analysis. PLoS Comput Biol 11(11): e1004574. doi: 10.1371/journal.pcbi.1004574.
For statistical mechanics aspects involved in MEGENA, please check:
Song W.-M., Di Matteo T.and Aste T., Building Complex Networks with Platonic Solids, Physical Reivew E, 2012 Apr;85(4 Pt 2):046115.
For installation for developmental github version:
library(devtools);
install_github("songw01/MEGENA");