plot_selectboost_cascade {SelectBoost}

plot_Selectboost_cascade

Description

Plot result of Selectboost for Cascade inference.

Usage

## S4 method for signature '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.

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..

Value

Nothing.

Author(s)

Frederic Bertrand, [e-mail]

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

See Also

boost, fastboost, selectboost, inference

Other Selectboost functions: autoboost(), boost, fastboost(), selectboost_cascade

Examples

data(net_confidences)
plot(net_confidence)
plot(net_confidence_.5)
plot(net_confidence_thr)