CountEdges              Count number of edges of a brain graph
GraphColors             Color graph vertices and edges
GraphDistances          Calculate Euclidean distance of edges and
                        vertices
IndividualContributions
                        Approaches to estimate individual network
                        contribution
NBS                     Network-based statistic for brain MRI data
VertexRoles             Gateway coefficient, participation coefficient,
                        and within-mod degree z-score
aal116                  Coordinates for data from the AAl116 atlas
aal2.120                Coordinates for data from the AAL2 atlas
aal2.94                 Coordinates for data from the AAL2 atlas
aal90                   Coordinates for data from the AAl90 atlas
analysis_random_graphs
                        Perform an analysis with random graphs for
                        brain MRI data
assign_lobes            Give vertices in a graph a _lobe_ attribute.
auc_diff                Difference in the area-under-the-curve of two
                        vectors
boot_global             Bootstrapping for global graph measures
brainGraph_GLM          Run linear models at each vertex of a graph
brainGraph_GLM_design   Create a design matrix for linear model
                        analysis
brainGraph_GLM_fit      Fit linear models and calculate statistics
brainGraph_init         Initialize variables for further use in
                        brainGraph
brainsuite              Coordinates for data from BrainSuite atlas
centr_lev               Calculate a vertex's leverage centrality
check.resid             Check model residuals for each brain region
choose.edges            Select edges for re-wiring.
contract_brainGraph     Contract graph vertices based on brain lobe and
                        hemisphere
cor.diff.test           Calculate the p-value for differences in
                        correlation coefficients
corr.matrix             Calculate correlation matrix and threshold
craddock200             Coordinates for data from the Craddock200 atlas
create_mats             Create connection matrices for tractography or
                        fMRI data
delete_all_attr         Delete all attributes of a graph
destrieux               Coordinates for data from the Destrieux atlas
destrieux.scgm          Coordinates for data from the Destrieux atlas
dk                      Coordinates for data from the Desikan-Killiany
                        atlas
dk.scgm                 Coordinates for data from the Desikan-Killiany
                        atlas
dkt                     Coordinates for data from the
                        Desikan-Killiany-Tourville atlas
dkt.scgm                Coordinates for data from the
                        Desikan-Killiany-Tourville atlas
dosenbach160            Coordinates for data from the Dosenbach160
                        atlas
edge_asymmetry          Calculate an asymmetry index based on edge
                        counts
efficiency              Calculate graph global, local, or nodal
                        efficiency
get.resid               Linear model residuals across brain regions
graph_attr_dt           Create a data table with graph global measures
hoa112                  Coordinates for data from Harvard-Oxford atlas
lpba40                  Coordinates for data from the LONI
                        probabilistic brain atlas
make_ego_brainGraph     Create a graph of the union of multiple vertex
                        neighborhoods
make_empty_brainGraph   Create an empty graph with attributes for
                        brainGraph
permute.group           Permutation test for group difference of graph
                        measures
plot_boot               Plot global graph measures with shaded regions
                        calculated from bootstrapping
plot_brainGraph         Plot a brain graph with a specific spatial
                        layout
plot_brainGraph_gui     GUI for plotting graphs overlaid on an MNI152
                        image or in a circle.
plot_brainGraph_list    Write PNG files for a list of graphs
plot_brainGraph_mni     Draw an axial or sagittal slice of the MNI152
                        T1 image
plot_brainGraph_multi   Save PNG of three views of a brain graph
plot_corr_mat           Plot a correlation matrix
plot_global             Plot global graph measures across densities
plot_group_means        Plot group distributions of volumetric measures
                        for a given brain region
plot_perm_diffs         Calculate permutation p-values and plot group
                        differences
plot_rich_norm          Plot normalized rich club coefficients against
                        degree threshold
plot_vertex_measures    Plot vertex-level graph measures at a single
                        density or threshold
rich_club_attrs         Assign graph attributes based on rich-club
                        analysis
rich_club_coeff         Calculate the rich club of a graph
rich_club_norm          Calculate the normalized rich club coefficient
rich_core               Calculate the rich core of a graph
robustness              Analysis of network robustness
rotation                Apply a rotation matrix to a set of points
set_brainGraph_attr     Set graph, vertex, and edge attributes common
                        in MRI analyses
sim.rand.graph.clust    Simulate a random graph with given degree
                        sequence and clustering.
sim.rand.graph.par      Simulate N random graphs w/ same clustering and
                        degree sequence as the input.
small.world             Calculate graph small-worldness
update_brainGraph_gui   Function to dynamically plot a graph
vec.transform           Transform a vector to have a different range
vertex_attr_dt          Create a data table with graph vertex measures
vulnerability           Calculate graph vulnerability
write_brainnet          Write files to be used for visualization with
                        BrainNet Viewer
