Learn R Programming

⚠️There's a newer version (2.1) of this package.Take me there.

Cascade (version 1.8)

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) .

Copy Link

Version

Install

install.packages('Cascade')

Monthly Downloads

300

Version

1.8

License

GPL (>= 2)

Issues

Pull Requests

Stars

Forks

Maintainer

Frederic Bertrand

Last Published

August 24th, 2019

Functions in Cascade (1.8)

cutoff

Choose the best cutoff
dim

Dimension of the data
Cascade-package

The Cascade Package
M

Simulated M data for examples.
Net_inf

Reverse-engineered network of the simulated data.
Net

Simulated network data for examples.
genePeakSelection

Methods for selecting genes
head

Overview of a micro_array object
inference

Reverse-engineer the network
compare-methods

Some basic criteria of comparison between actual and inferred network.
micro_array-class

Class "micro_array"
gene_expr_simulation

Simulates microarray data based on a given network.
print-methods

~~ Methods for Function print ~~
summary-methods

Methods for Function summary
micropredict-class

Class "micropredict"
plot-methods

Plot
network_random

Generates a network.
network-class

Class "network"
network

A network object data.
Selection

Selection of genes.
analyze_network

Analysing the network
evolution

See the evolution of the network with change of cutoff
unionMicro-methods

Makes the union between two micro_array objects.
position-methods

Returns the position of edges in the network
geneNeighborhood

Find the neighborhood of a set of nodes.
predict

Prediction of the gene expressions after a knock-out experience predict
as.micro_array

Coerce a matrix into a micro_array object.