![[R logo]](../../../doc/html/Rlogo.svg)
![[Up]](../../../doc/html/left.jpg)
![[Top]](../../../doc/html/up.jpg)
| .get_correlates | .get_correlates |
| .plot_one_interaction | Network visualization |
| discretize | Set the discretized expression attribute Uses the discretize_exprs function of the FCBF package |
| discretize-method | Set the discretized expression attribute Uses the discretize_exprs function of the FCBF package |
| fc | Example fcoex object |
| fcoex-class | An S4 class to represent the fcoex analysis. |
| find_cbf_modules | find_cbf_modules |
| find_cbf_modules-method | find_cbf_modules |
| get_nets | Network visualization |
| get_nets-method | Network visualization |
| idents | Retrieves module identities from the recluster function |
| idents-method | Retrieves module identities from the recluster function |
| mini_pbmc3k | Processed subset of the pbmc3k dataset from PBMC genomics |
| module_genes | Get the module genes in a fcoex object |
| module_genes-method | Get the module genes in a fcoex object |
| mod_colors | Set module colors mod_colors attribute |
| mod_colors-method | Set module colors mod_colors attribute |
| mod_gene_num | Get the number of genes in modules in a fcoex object This function was copied and adapted from the CEMiTool package. |
| mod_gene_num-method | Get the number of genes in modules in a fcoex object This function was copied and adapted from the CEMiTool package. |
| mod_names | Get module names in a fcoex object |
| mod_names-method | Get module names in a fcoex object |
| mod_ora | # Run module overrepresentation analysis |
| mod_ora-method | # Run module overrepresentation analysis |
| new_fcoex | Create a fcoex object |
| nmodules | Get the number of modules in a fcoex object |
| nmodules-method | Get the number of modules in a fcoex object |
| ora_data | Retrieve over representation analysis (ORA) results |
| ora_data-method | Retrieve over representation analysis (ORA) results |
| plot_ora | ORA visualization |
| plot_ora-method | ORA visualization |
| recluster | Recluster cells based on fcoex module composition |
| recluster-method | Recluster cells based on fcoex module composition |
| save_plots | Save fcoex object plots |
| save_plots-method | Save fcoex object plots |
| show-method | Print a fcoex object |
| show_net | Retrieve fcoex net plots |
| show_net-method | Retrieve fcoex net plots |
| show_ora | Retrieve fcoex ora plots |
| show_ora-method | Retrieve fcoex ora plots |