Cascade-package |
The Cascade Package: Selection, Reverse-Engineering and Prediction in Cascade Networks |
analyze_network |
Analysing the network |
analyze_network-method |
Analysing the network |
analyze_network-methods |
Analysing the network |
as.micro_array |
Coerce a matrix into a micro_array object. |
Cascade |
The Cascade Package: Selection, Reverse-Engineering and Prediction in Cascade Networks |
compare |
Some basic criteria of comparison between actual and inferred network. |
compare-method |
Some basic criteria of comparison between actual and inferred network. |
compare-methods |
Some basic criteria of comparison between actual and inferred network. |
cutoff |
Choose the best cutoff |
cutoff-method |
Choose the best cutoff |
cutoff-methods |
Choose the best cutoff |
dim |
Dimension of the data |
dim-method |
Dimension of the data |
dim-methods |
Dimension of the data |
evolution |
See the evolution of the network with change of cutoff |
evolution-method |
See the evolution of the network with change of cutoff |
evolution-methods |
See the evolution of the network with change of cutoff |
geneNeighborhood |
Find the neighborhood of a set of nodes. |
geneNeighborhood-method |
Find the neighborhood of a set of nodes. |
geneNeighborhood-methods |
Find the neighborhood of a set of nodes. |
genePeakSelection |
Methods for selecting genes |
genePeakSelection-method |
Methods for selecting genes |
genePeakSelection-methods |
Methods for selecting genes |
geneSelection |
Methods for selecting genes |
geneSelection-method |
Methods for selecting genes |
geneSelection-methods |
Methods for selecting genes |
gene_expr_simulation |
Simulates microarray data based on a given network. |
gene_expr_simulation-method |
Simulates microarray data based on a given network. |
gene_expr_simulation-methods |
Simulates microarray data based on a given network. |
head-method |
Overview of a micro_array object |
head-methods |
Overview of a micro_array object |
inference |
Reverse-engineer the network |
inference-method |
Reverse-engineer the network |
inference-methods |
Reverse-engineer the network |
M |
Simulated M data for examples. |
methods |
Overview of a micro_array object |
micropredict-class |
Class '"micropredict"' |
micro_array-class |
Class '"micro_array"' |
Net |
Simulated network data for examples. |
network |
A network object data. |
network-class |
Class '"network"' |
network_random |
Generates a network. |
Net_inf |
Reverse-engineered network of the simulated data. |
plot-method |
Plot |
plot-methods |
Plot |
position |
Returns the position of edges in the network |
position-method |
Returns the position of edges in the network |
position-methods |
Returns the position of edges in the network |
predict |
Prediction of the gene expressions after a knock-out experience 'predict' |
predict-method |
Prediction of the gene expressions after a knock-out experience 'predict' |
predict-methods |
Prediction of the gene expressions after a knock-out experience 'predict' |
print-method |
Methods for Function 'print' |
print-methods |
Methods for Function 'print' |
Selection |
Selection of genes. |
summary-method |
Methods for Function 'summary' |
summary-methods |
Methods for Function 'summary' |
unionMicro |
Makes the union between two micro_array objects. |
unionMicro-method |
Makes the union between two micro_array objects. |
unionMicro-methods |
Makes the union between two micro_array objects. |