SILGGM

Provides a general framework to perform statistical inference of each gene pair and global inference of whole-scale gene pairs in gene networks using the well known Gaussian graphical model (GGM) in a time-efficient manner. We focus on the high-dimensional settings where p (the number of genes) is allowed to be far larger than n (the number of subjects). Four main approaches are supported in this package: (1) the bivariate nodewise scaled Lasso (Ren et al (2015) doi:10.1214/14-AOS1286) (2) the de-sparsified nodewise scaled Lasso (Jankova and van de Geer (2017) doi:10.1007/s11749-016-0503-5) (3) the de-sparsified graphical Lasso (Jankova and van de Geer (2015) doi:10.1214/15-EJS1031) (4) the GGM estimation with false discovery rate control (FDR) using scaled Lasso or Lasso (Liu (2013) doi:10.1214/13-AOS1169). Windows users should install 'Rtools' before the installation of this package.