A C D E F G I L M N O P R S T V Z
| adjacency_similarity | Calculate Similarity Between Two Graphs via Adjacency Matrices | 
| anno_edge | Use dataframe to annotate edges of an igraph | 
| anno_node | Use data.frame to annotate vertexes of metanet | 
| anno_vertex | Use data.frame to annotate vertexes of metanet | 
| arc_count | Edgelist | 
| arc_taxonomy | Edgelist | 
| as.ggig | Transfer an igraph object to a ggig | 
| as.metanet | Update a metanet object or transform igraph object to metanet object | 
| as_arc | Layout as a arc | 
| as_circle_tree | Layout as a circle_tree | 
| as_coors | Transfer to a coors object | 
| as_line | Layout as a line | 
| as_multi_layer | Layout as a multi_layer | 
| as_polyarc | Layout as a polyarc | 
| as_polycircle | Layout as a polycircle | 
| as_polygon | Layout as a polygon | 
| as_poly_sector | Layout as a multi_layer | 
| cal_sim | Calculate similarity for one t(otutab) | 
| check_tabs | Check tables and extract common samples | 
| clean_igraph | Clean a igraph object | 
| clean_multi_edge_metanet | Clean multi edge metanet to plot | 
| Cohesion | Cohesion calculation | 
| combine_n_module | Filter some modules as others | 
| compare_rand | Net_pars of many random network | 
| co_net | MetaNet networks | 
| co_net2 | MetaNet networks | 
| co_net_rmt | MetaNet networks | 
| c_net_annotate | Annotate a metanet | 
| c_net_build | Construct a metanet from a corr object | 
| c_net_cal | Calculate correlation for one or two t(otutab), or distance for one t(otutab). | 
| c_net_calculate | Calculate correlation for one or two t(otutab), or distance for one t(otutab). | 
| c_net_compare | Compare Two Networks | 
| c_net_difference | Difference two networks | 
| c_net_ego | Extract ego-centric subnetwork with preserved class attributes | 
| c_net_filter | Filter a network according to some attributes | 
| c_net_from_edgelist | Construct a network from edge_list dataframe | 
| c_net_highlight | Highlight specific nodes in a network | 
| c_net_index | Calculate all topological indexes of a network | 
| c_net_intersect | Intersect two networks | 
| c_net_lay | Layout coordinates | 
| c_net_layout | Layout coordinates | 
| c_net_load | Load network file | 
| c_net_module | Detect the modules | 
| c_net_neighbors | Extract ego-centric subnetwork with preserved class attributes | 
| c_net_plot | Plot a metanet | 
| c_net_save | Save network file | 
| c_net_set | Set basic attributes from totu table | 
| c_net_skeleton | Get skeleton network according to a group | 
| c_net_stability | Evaluate the stability of a network | 
| c_net_union | Union two networks | 
| c_net_update | Update a metanet object or transform igraph object to metanet object | 
| df2net_tree | Transform a dataframe to a network edgelist. | 
| extract_sample_net | Extract each sample network from the whole network | 
| fast_cor | Fast correlation calculation | 
| filter_n_module | Filter some modules as others | 
| fit_power | Fit power-law distribution for an igraph | 
| get_big_lay_nice | Layout with group nicely | 
| get_community | Get community | 
| get_e | Get edge information | 
| get_group_skeleton | Get skeleton network according to a group | 
| get_module | Get module | 
| get_module_eigen | Get module_eigen | 
| get_n | Get network information | 
| get_v | Get vertex information | 
| g_layout | Layout with group | 
| g_layout_backbone | Layout with group nicely | 
| g_layout_circlepack | Layout with group nicely | 
| g_layout_multi_layer | Layout with group as a polygon | 
| g_layout_nice | Layout with group nicely | 
| g_layout_polyarc | Layout with group as a polygon | 
| g_layout_polycircle | Layout with group as a polygon | 
| g_layout_polygon | Layout with group as a polygon | 
| g_layout_poly_sector | Layout with group | 
| g_layout_stress | Layout with group nicely | 
| g_layout_treemap | Layout with group nicely | 
| input_cytoscape | Input a cyjs file exported by Cytoscape | 
| input_gephi | Input a graphml file exported by Gephi | 
| is.metanet | Is this object a metanet object? | 
| is_metanet | Is this object a metanet object? | 
| links_stat | Link summary of the network | 
| metab | MetaNet networks abundance | 
| metab_g | MetaNet networks metadata | 
| micro | MetaNet networks abundance | 
| micro_g | MetaNet networks metadata | 
| module_detect | Detect the modules | 
| module_eigen | Calculate the eigenvalue of each module and correlation of nodes and eigenvalue (node_eigen_cor). | 
| module_expression | Calculate the eigenvalue of each module and correlation of nodes and eigenvalue (node_eigen_cor). | 
| module_net | Generate a n-modules network | 
| multi1 | MetaNet networks | 
| multi_net_build | Multi-omics network build | 
| nc | Calculate natural_connectivity | 
| netD3plot | plot use networkD3 | 
| net_par | Calculate all topological indexes of a network | 
| olympic_rings_net | Plot olympic rings using network | 
| p.adjust.table | p.adjust apply on a correlation table (matrix or data.frame) | 
| plot.cohesion | Cohesion calculation | 
| plot.ggig | Plot a ggig | 
| plot.metanet | Plot a metanet | 
| plot.metanet_compare | Plot a metanet_compare | 
| plot.rmt_res | Plot a rmt_res | 
| plot.robust | Plot robust | 
| plot.robustness | Plot robustness | 
| plot.vulnerability | Plot vulnerability | 
| plot_e_type_bar | Plot e_type bar | 
| plot_module_tree | Filter some modules as others | 
| plot_multi_nets | Batch drawing multiple network diagrams | 
| plot_net_degree | Plot degree distribution of networks | 
| print.cohesion | Print method for 'cohesion' objects | 
| print.coors | Print method for 'coors' objects | 
| print.corr | Print method for 'corr' objects | 
| print.ggig | Print method for 'ggig' objects | 
| print.metanet | Print method for 'metanet' objects | 
| print.metanet_compare | Print method for 'metanet_compare' objects | 
| print.robust | Print method for 'robust' objects | 
| print.robustness | Print method for 'robustness' objects | 
| print.vulnerability | Print method for 'vulnerability' objects | 
| rand_net | Degree distribution comparison with random network | 
| rand_net_par | Net_pars of many random network | 
| read_corr | Read a corr object | 
| rmt | Get RMT threshold for a correlation matrix | 
| RMT_threshold | Get RMT threshold for a correlation matrix | 
| robustness | Evaluate the stability of a network | 
| robust_test | Evaluate the stability of a network | 
| save_corr | Save a corr object | 
| show_MetaNet_logo | Show MetaNet logo | 
| skeleton_plot | Get skeleton network according to a group | 
| smallworldness | Calculate small-world coefficient | 
| spatstat_layout | Generate spatial layout using 'spatstat' | 
| summary.corr | Summary method for 'corr' objects | 
| summary_module | Summary module index | 
| summ_2col | Summaries two columns information | 
| to_module_net | Transformation a network to a module network | 
| transc | MetaNet networks abundance | 
| transc_g | MetaNet networks metadata | 
| transform_coors | Transform the layout of a 'coors' object | 
| twocol_edgelist | Quick build a metanet from two columns table | 
| venn_net | Venn network | 
| vulnerability | Evaluate the stability of a network | 
| zp_analyse | Zi-Pi calculate | 
| zp_plot | Zi-Pi calculate |