Man pages for SystemsGenetics/KINC.R
Provides additional functions for network files created using KINC.
| analyzeEdgeCat | Performs significant testing of a single edge in the network... |
| analyzeEdgeQuant | Performs linear regression of a quantitative traits against a... |
| analyzeNetCat | Performs significant testing of each edge in the network for... |
| analyzeNetQuant | Performs significance association for every edge in the... |
| clusterEdges | Performs hierarchical clustering of edges in a network based... |
| drawEdgeListHeatMap | Draws a heatmap with dendrogram of a module in the netework. |
| drawEdgeTreeHeatMap | Draws a heatmap with dendrogram with clusters identified. |
| findLinkedCommunities | Finds Linked communities in the network. |
| getEdgeSamples | Uses the edge sample string to return the list of sample... |
| getPairGMMEdges | Performs pair-wise Gaussian Mixture Models (GMM) on a pair of... |
| getSampleMatrix | Generates a matrix containing edge sample strings digits. |
| graphEdgeList | Draws the graph of a set of edges in the network |
| graphNet | Draws the graph of the entire network |
| highlightEdgeList | Colors the edges of a given edge list on the currently... |
| loadSampleAnnotations | Imports sample annotations. |
| mergeClusters | The recursive merging function called by mergeCommunities().... |
| mergeCommunities | Merges linked community clusters that have the most similar... |
| plot2DEdgeList | Plots a 2D scatterplot for a given list of edges. |
| plot3DEdgeList | Plots a 3D scatterplot for a given list of edges. |
| plot3DPair | Plots a 3D scatterplot for a given pair of nodes. |
| RMT | Performs the RMT analysis on a gene similarity matrix. |
