Man pages for saralinker/GONetwork
Similarity matrix optimized for sparse hierarchical networks
| AssignCluster | AssignCluster |
| cutoff | cutoff |
| cyto | Convert distance matrix to a cytoscape formatted table |
| exactTerms | Finds exact GO term annotation associated with a general... |
| FillM | FillM |
| findGenes | Find genes associated with a given GO term |
| findTerms | Find GO terms linking together a cluster of genes |
| genes_in_cluster | genes_in_cluster return a list of all genes assigned to a... |
| getGo | Calculate the GO term matrix using hierarchical knowledge |
| getGo_bin | Calculate the GO term matrix without hierarchical information |
| GONetwork-package | Similarity matrix optimized for sparse hierarchical networks |
| GoTheDist | Calculate the distance matrix between genes based on GO... |
| InnerFun | Inner function for an internal parallelizable cosine distance... |
| loop_clusters | loop_clusters loop through each cluster to test proportions |
| OuterFun | Outer function for an internal parallelizable cosine distance... |
| symbolConvert | symbolConvert |
| TermList-class | topTerm determine the most descriptive term for each cluster |
| testClusters | calculate the relative abundance of each group within a... |
| test_global_cluster_proportion | test_global_cluster_proportion test the likelihood of a term... |
