Network Analysis for Omics Data
Calculate Similarity Between Two Graphs via Adjacency Matrices
Use dataframe to annotate edges of an igraph
Use data.frame to annotate vertexes of metanet
Edgelist
Edgelist
Layout as a arc
Layout as a circle_tree
Transfer to a coors object
Layout as a line
Layout as a multi_layer
Layout as a multi_layer
Layout as a polyarc
Layout as a polycircle
Layout as a polygon
Transfer an igraph object to a ggig
Annotate a metanet
Construct a metanet from a corr object
Calculate correlation for one or two t(otutab), or distance for one t(...
Compare Two Networks
Difference two networks
Extract ego-centric subnetwork with preserved class attributes
Filter a network according to some attributes
Construct a network from edge_list dataframe
Highlight specific nodes in a network
Intersect two networks
Layout coordinates
Load network file
Plot a metanet
Save network file
Set basic attributes from totu table
Evaluate the stability of a network
Union two networks
Update a metanet object or transform igraph object to metanet object
Calculate similarity for one t(otutab)
Check tables and extract common samples
Clean a igraph object
Clean multi edge metanet to plot
MetaNet networks
MetaNet networks
MetaNet networks
Cohesion calculation
Net_pars of many random network
Transform a dataframe to a network edgelist.
Extract each sample network from the whole network
Fast correlation calculation
Filter some modules as others
Fit power-law distribution for an igraph
Layout with group nicely
Layout with group
Layout with group as a polygon
Layout with group
Get community
Get edge information
Get skeleton network according to a group
Get module_eigen
Get module
Get network information
Get vertex information
Assignment pipe
Input a cyjs file exported by Cytoscape
Input a graphml file exported by Gephi
Is this object a metanet object?
Link summary of the network
MetaNet networks metadata
MetaNet networks abundance
MetaNet: Network Analysis for Omics Data
MetaNet networks metadata
MetaNet networks abundance
Detect the modules
Calculate the eigenvalue of each module and correlation of nodes and e...
Generate a n-modules network
Multi-omics network build
MetaNet networks
Calculate natural_connectivity
Calculate all topological indexes of a network
plot use networkD3
Plot olympic rings using network
p.adjust apply on a correlation table (matrix or data.frame)
Pipe operator
Plot e_type bar
Batch drawing multiple network diagrams
Plot degree distribution of networks
Plot a ggig
Plot a metanet_compare
Plot a metanet
Plot a rmt_res
Print method for 'cohesion' objects
Print method for 'coors' objects
Print method for 'corr' objects
Print method for 'ggig' objects
Print method for 'metanet_compare' objects
Print method for 'metanet' objects
Print method for 'robust' objects
Print method for 'robustness' objects
Print method for 'vulnerability' objects
Degree distribution comparison with random network
Read a corr object
Get RMT threshold for a correlation matrix
Plot robust
Plot robustness
Save a corr object
Show MetaNet logo
Calculate small-world coefficient
Generate spatial layout using spatstat
Summaries two columns information
Summary module index
Summary method for 'corr' objects
Transformation a network to a module network
MetaNet networks metadata
MetaNet networks abundance
Transform the layout of a 'coors' object
Quick build a metanet from two columns table
Venn network
Plot vulnerability
Zi-Pi calculate
Comprehensive network analysis package. Calculate correlation network fastly, accelerate lots of analysis by parallel computing. Support for multi-omics data, search sub-nets fluently. Handle bigger data, more than 10,000 nodes in each omics. Offer various layout method for multi-omics network and some interfaces to other software ('Gephi', 'Cytoscape', 'ggplot2'), easy to visualize. Provide comprehensive topology indexes calculation, including ecological network stability.