Table 1 Reverse engineering applications used in this study.
From: Reverse Engineering of Gene Regulatory Networks: A Comparative Study
Name | Type | Info | Reference |
|---|---|---|---|
ARACNe | relevance network with mutual information | C command line | Basso et al. [6] |
ParCorA | relevance network with partial Pearson or Spearman correlation | C command line | de la Fuente et al. [18] |
GNRevealer | neural network | C++ command line | Hache et al. [9] |
Banjo | Bayesian network | Java command line | Yu et al. [13] |
LDST | state space model | Matlab script | Rangel et al. [10] |
GeneNet | graphical Gaussian model | R script | Schäfer and Strimmer [7] |