Man pages for CoNI
Correlation Guided Network Integration (CoNI)
| assign_colorsAnnotation | Assing Colors to Class |
| barplot_VertexsPerEdgeFeature | Number Vertex features per class for every shared edge... |
| checkInputParameters | Check input parameters |
| check_outputDir | Output directory |
| check_previous | Check previous files |
| Chow_GeneExpData | Chow gene expression data |
| Chow_MetaboliteData | Chow metabolite data |
| chunk2 | Split function |
| compare_sampleNames | Compare sample names |
| Compare_Triplets | Compare triplets |
| Compare_VertexClasses_sharedEdgeFeatures | Table VertexClass pairs of shared Edge Features |
| CoNI | Correlation guided Network Integration |
| CoNIResults_Chow | CoNI Results Chow |
| CoNIResults_HFD | CoNI Results HFD |
| CoNIResultsHFDToy | Toy data HFD results |
| countClassPerEdgeFeature | Number lipid features per class |
| createBipartiteGraph | Bipartite Network |
| createBipartiteTable | Bipartite Table |
| 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) |
| delIntFiles | Delete intermediary files |
| do_objectsExist | Check if files exist |
| find_localControllingFeatures | Find local controlling features |
| flattenCorrMatrix | Flatten |
| GeneExpToy | Toy data gene expression |
| generate_network | Create network |
| getcolor | Get class rgb color |
| get_lowvarFeatures | Low variance features |
| getstackedGlobalBarplot_and_Grid | Stacked Global Barplot Side-by-side (two treatments) |
| getvertexes_edgeFeature | Get vertexes for edge feature |
| getVertexsPerEdgeFeature | Vertex Class profile per edge feature (one treatment) |
| getVertexsPerEdgeFeature_and_Grid | Vertex-Class profile per edge feature Side-by-Side (two... |
| HFD_GeneExpData | HFD gene expression data |
| HFD_MetaboliteData | HFD metabolite data |
| labels2colors_2 | Labels to colors |
| merge_outpuSplitFiles | Merge Files. |
| MetaboExpToy | Toy data metabolite expression |
| MetaboliteAnnotation | Metabolite Annotation |
| MetColorTable | Toy data annotation |
| NetStats | Network Statistics |
| obtain_groupcolors | Get colors |
| plotPcorvsCor | Correlation vs Partial correlation |
| sig_correlation2 | Pairwise correlations |
| sig_correlation2Dfs | Significant correlations 2 Df |
| split_df | Split dataset |
| 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 |
| writeTable | Write table |
