Cascade2.1 package

Selection, Reverse-Engineering and Prediction in Cascade Networks

analyze_network-network-method

Analysing the network

as.micro_array

Coerce a matrix into a micro_array object.

Cascade-package

The Cascade Package: Selection, Reverse-Engineering and Prediction in ...

compare-methods

Some basic criteria of comparison between actual and inferred network.

cutoff-network-method

Choose the best cutoff

dim

Dimension of the data

evolution-network-method

See the evolution of the network with change of cutoff

gene_expr_simulation-network-method

Simulates microarray data based on a given network.

geneNeighborhood-network-method

Find the neighborhood of a set of nodes.

geneSelection

Methods for selecting genes

head-micro_array-method

Overview of a micro_array object

inference-micro_array-method

Reverse-engineer the network

micro_array-class

Class "micro_array"

micropredict-class

Class "micropredict"

network-class

Class "network"

network_random

Generates a network.

plot-methods

Plot

position-methods

Returns the position of edges in the network

predict-micro_array-method

Prediction of the gene expressions after a knock-out experience `predi...

print-methods

Methods for Function print

summary-methods

Methods for Function summary

unionMicro-methods

Makes the union between two micro_array objects.

Download source packageRead PDF manual

A modeling tool allowing gene selection, reverse engineering, and prediction in cascade networks. Jung, N., Bertrand, F., Bahram, S., Vallat, L., and Maumy-Bertrand, M. (2014) <doi:10.1093/bioinformatics/btt705>.

  • Maintainer: Frederic Bertrand
  • License: GPL (>= 2)
  • Last published: 2022-11-28

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