analyze_network-omics_network-method | Analysing the network |
as.omics_array | Coerce a matrix into a omics_array object. |
CascadeFinit | Create initial F matrices for cascade networks inference. |
CascadeFshape | Create F matrices shaped for cascade networks inference. |
CLL | Expression data from healthy and malignant (chronic... |
clustExploration-omics_array-method | A function to explore a dataset and cluster its rows. |
clustInference-omics_array-numeric-method | A function to explore a dataset and cluster its rows. |
compare-methods | Some basic criteria of comparison between actual and inferred... |
cutoff-omics_network-method | Choose the best cutoff |
dim | Dimension of the data |
doc | Human transcription factors from HumanTFDB |
evolution-omics_network-method | See the evolution of the network with change of cutoff |
gene_expr_simulation-omics_network-method | Simulates omicsarray data based on a given network. |
geneNeighborhood-omics_network-method | Find the neighborhood of a set of nodes. |
geneSelection | Methods for selecting genes |
head-omics_array-method | Overview of a omics_array object |
IndicFinit | Create initial F matrices using specific intergroup actions... |
IndicFshape | Create F matrices using specific intergroup actions for... |
inference | Reverse-engineer the network |
infos | Details on some probesets of the affy_hg_u133_plus_2... |
M | Simulated microarray. |
Net | Simulated network for examples. |
Net_inf_PL | Reverse-engineered network of the M and Net simulated data. |
network | A example of an inferred network (4 groups case). |
network2gp | A example of an inferred cascade network (2 groups case). |
networkCascade | A example of an inferred cascade network (4 groups case). |
network_random | Generates a network. |
omics_array-class | Class '"omics_array"' |
omics_network-class | Class '"omics_network"' |
omics_predict-class | Class '"omics_predict"' |
Patterns-package | Patterns: Deciphering Biological Networks with Patterned... |
plotF | Plot functions for the F matrices. |
plot-methods | Plot |
position-methods | Returns the position of edges in the network |
predict-omics_array-method | Methods for Function 'predict' |
probeMerge-omics_array-method | Function to merge probesets |
replaceBand | Replace matrix values by band. |
replaceDown | Replace matrix values triangular lower part and by band for... |
replaceUp | Replace matrix values triangular upper part and by band for... |
Selection | Selection of genes. |
show-methods | 'Show' methods |
summary-methods | 'Summary' methods |
unionOmics-methods | Makes the union between two omics_array objects. |
unsupervised_clustering_auto_m_c-omics_array-method | Cluster a omics_array object: determine optimal fuzzification... |
unsupervised_clustering-omics_array-numeric-numeric-method | Cluster a omics_array object: performs the clustering. |
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