# Correlation Guided Network Integration (CoNI)

## Documentation for package ‘CoNI’ version 0.1.0

- DESCRIPTION file
- User guides, package vignettes and other documentation

## Help Pages

assign_colorsAnnotation | Assing Colors to Class
Chow_GeneExpData | Chow gene expression data
Chow_MetaboliteData | Chow metabolite data
Compare_Triplets | Compare triplets
Compare_VertexClasses_sharedEdgeFeatures | Table VertexClass pairs of shared Edge Features
CoNI | Correlation guided Network Integration
CoNIResultsHFDToy | Toy data HFD results
CoNIResults_Chow | CoNI Results Chow
CoNIResults_HFD | CoNI Results HFD
createBipartiteGraph | Bipartite Network
create_edgeFBarplot | Vertex-class pairs profile of one shared edge feature
create_GlobalBarplot | Vertex-class pairs profile of shared features
create_stackedGlobalBarplot_perTreatment | Stacked Global Barplot (One treatment)
find_localControllingFeatures | Find local controlling features
GeneExpToy | Toy data gene expression
generate_network | Create network
getstackedGlobalBarplot_and_Grid | Stacked Global Barplot Side-by-side (two treatments)
getVertexsPerEdgeFeature | Vertex Class profile per edge feature (one treatment)
getVertexsPerEdgeFeature_and_Grid | Vertex-Class profile per edge feature Side-by-Side (two treatments)
HFD_GeneExpData | HFD gene expression data
HFD_MetaboliteData | HFD metabolite data
MetaboExpToy | Toy data metabolite expression
MetaboliteAnnotation | Metabolite Annotation
MetColorTable | Toy data annotation
NetStats | Network Statistics
plotPcorvsCor | Correlation vs Partial correlation
tableLCFs_VFs | Table local controlling edge features and vertex pairs
top_n_LF_byMagnitude | Linker Features by magnitude of effect
VertexClassesSharedGenes_HFDvsChow | Toy data comparison treatments