Plot_igraph

Functions used for wrapping igraph

http://igraph.org/redirect.html

PlotIGraphModules

class neuropype_graph.interfaces.plot_igraph.plots.PlotIGraphModules(from_file=None, **inputs)

Description:

Graphical representation of the modular structure of the network. If coords are provided, plot in space, otherwise use topological space. If node labels are provided, write them on the graph In node roles are provided , node shape are diplayed on the graph

Inputs:

rada_lol_file:

type = File, exists=True, desc=”modularity structure description, generated by radatools”, mandatory=True

Pajek_net_file:

type = File, exists=True, desc=’net description in Pajek format’, mandatory=True

coords_file:

type = File, exists=True, desc=”txt file containing the coords of the nodes”, mandatory=False

labels_file:

type = File, exists=True, desc=”txt file containing the labels of the nodes (full description)”, mandatory=False

node_roles_file:

type = File, exists=True, desc=”txt file containing the roles of the nodes (integer labels)”, mandatory=False

Outputs:

all_modules_files:

type = List of Files, (exists=True), desc=”graphical representation in space (possibly, if coords is given) from different point of view of all modules together + (surely) topological representation”

PlotIGraphCoclass

class neuropype_graph.interfaces.plot_igraph.plots.PlotIGraphCoclass(from_file=None, **inputs)

Description

Plot coclassification matrix with igraph - labels are optional, - threshold is optional (default, 50 = half the group) - coordinates are optional, if no coordinates are specified, representation in topological (Fruchterman-Reingold) space

Inputs:

coclass_matrix_file:

type = File, exists=True, desc=’coclass matrix in npy format’, mandatory=True

labels_file:

type = File, exists=True, desc=’labels of nodes’, mandatory=False

threshold:

type = Int,default = 50, usedefault = True, desc=’What min coclass value is reresented by an edge on the graph’, mandatory=False

gm_mask_coords_file:

type = File, exists=True, desc=’node coordinates in MNI space (txt file)’, mandatory=False

Outputs:

plot_igraph_3D_coclass_matrix_file:

type = File, exists=True, desc=”eps file with igraph graphical representation”

Comments:

Used for coclassification, not so much used anymore

PlotIGraphConjCoclass

class neuropype_graph.interfaces.plot_igraph.plots.PlotIGraphConjCoclass(from_file=None, **inputs)

Description:

Plot coclassification matrix with igraph - labels are optional, - threshold is optional (default, 50 = half the group) - coordinates are optional, if no coordinates are specified, representation in topological (Fruchterman-Reingold) space

Comments:

Not sure it is still used somewhere...