plot_Selectboost_cascade

Plot result of Selectboost for Cascade inference.

# S4 method for network.confidence,ANY
plot(x, col = gray((1:99)/100, alpha = NULL), ...)

Arguments

x: A network.confidence object to be plotted.
col: Colors for the plot.
...: Additionnal arguments passed to the heatmap function.

Value

Nothing.

Details

Extending results from the Cascade package: providing confidence indices for the reverse engineered links.

Reference for the Cascade modelling Vallat, L., Kemper, C. a., Jung, N., Maumy-Bertrand, M., Bertrand, F., Meyer, N., Pocheville, A., Fisher, J. W., Gribben, J. G. et Bahram, S. (2013). Reverse-engineering the genetic circuitry of a cancer cell with predicted intervention in chronic lymphocytic leukemia. Proceedings of the National Academy of Sciences of the United States of America, 110(2), 459-64.

Reference for the Cascade package Jung, N., Bertrand, F., Bahram, S., Vallat, L. et Maumy-Bertrand, M. (2014). Cascade : A R package to study, predict and simulate the diffusion of a signal through a temporal gene network. Bioinformatics. ISSN 13674803..

References

selectBoost: a general algorithm to enhance the performance of variable selection methods in correlated datasets, Frédéric Bertrand, Ismaïl Aouadi, Nicolas Jung, Raphael Carapito, Laurent Vallat, Seiamak Bahram, Myriam Maumy-Bertrand, Bioinformatics, 2020. doi:10.1093/bioinformatics/btaa855

Author

Frederic Bertrand, frederic.bertrand@utt.fr

Examples

data(net_confidences)
#> Warning: data set ‘net_confidences’ not found
plot(net_confidence)

plot(net_confidence_.5)

plot(net_confidence_thr)