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Cascade (version 1.7)

Selection, Reverse-Engineering and Prediction in Cascade Networks

Description

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) .

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Install

install.packages('Cascade')

Monthly Downloads

300

Version

1.7

License

GPL (>= 2)

Issues

0

Pull Requests

0

Stars

1

Forks

0

Maintainer

Frederic Bertrand

Last Published

February 18th, 2019

Functions in Cascade (1.7)

head

Overview of a micro_array object
Cascade-package

The Cascade Package
Selection

Selection of genes.
inference

Reverse-engineer the network
micro_array-class

Class "micro_array"
compare-methods

Some basic criteria of comparison between actual and inferred network.
cutoff

Choose the best cutoff
analyze_network

Analysing the network
as.micro_array

Coerce a matrix into a micro_array object.
geneNeighborhood

Find the neighborhood of a set of nodes.
unionMicro-methods

Makes the union between two micro_array objects.
network_random

Generates a network.
predict

Prediction of the gene expressions after a knock-out experience predict
print-methods

~~ Methods for Function print ~~
evolution

See the evolution of the network with change of cutoff
genePeakSelection

Methods for selecting genes
plot-methods

Plot
position-methods

Returns the position of edges in the network
dim

Dimension of the data
micropredict-class

Class "micropredict"
network-class

Class "network"
network

A network object data.
gene_expr_simulation

Simulates microarray data based on a given network.
simul

Simulated data for examples.
summary-methods

Methods for Function summary