R: Network-Based Analysis of Gene Expression Perturbations

# Network-Based Analysis of Gene Expression Perturbations

## Documentation for package ‘ExpressionCellNet’ version 0.1.1

- DESCRIPTION file

## Help Pages

AnalyzeNetwork | Analyze network topology and identify hub genes
BuildNetwork | Construct a gene interaction network centered on a seed gene
CountMatrixNormalization | Normalize expression count matrix
createExpCellNetObj | Create an ExpressionCellNet object
example_data | Example dataset for ExpressionCellNet
ExtractFeature | Extract network-derived expression features
FindPathway | Find the shortest path between two genes in the network
MeanExpression | Compute mean expression of a gene
NetworkPrediction | Predict network-wide expression changes after perturbing a seed gene
PCAforGenes | PCA on network-derived features
PlotCorrelation | Plot correlation between two genes
PlotCountMatrix | Plot expression matrix distribution
PlotNetworkPrediction | Plot network prediction summary
PlotPathwayPrediction | Plot pathway-restricted prediction to a target gene
RegenerateTrainTest | Regenerate train/test split
ShowHubGenes | Show hub genes on the network
ShowNetwork | Visualize the constructed network
ShowPathway | Visualize a pathway (highlighted subgraph)
UMAPforGenes | UMAP on network-derived features