AAL                     Coordinates for data from the AAL-based atlases
Bootstrapping           Bootstrapping for global graph measures
CountEdges              Count number of edges of a brain graph
DataTables              Create a data table with graph global and
                        vertex measures
FreesurferAtlases       Coordinates for data from Freesurfer atlases
GLM                     Fit linear models at each vertex of a graph
GLMdesign               Create a design matrix for linear model
                        analysis
GLMfit                  Fit linear models for t contrasts
GraphDistances          Calculate Euclidean distance of edges and
                        vertices
IndividualContributions
                        Approaches to estimate individual network
                        contribution
MediationAnalysis       Mediation analysis with brain graph measures as
                        mediator variables
NBS                     Network-based statistic for brain MRI data
RandomGraphs            Perform an analysis with random graphs for
                        brain MRI data
Residuals               Linear model residuals in structural covariance
                        networks
RichClub                Rich club calculations
VertexRoles             Gateway coefficient, participation coefficient,
                        and within-mod degree z-score
apply_thresholds        Threshold additional set of matrices
brainGraph_permute      Permutation test for group difference of graph
                        measures
brainsuite              Coordinates for data from BrainSuite atlas
centr_betw_comm         Calculate communicability betweenness
                        centrality
centr_lev               Calculate a vertex's leverage centrality
coeff_var               Calculate coefficient of variation
communicability         Calculate communicability
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
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
hoa112                  Coordinates for data from Harvard-Oxford atlas
hubness                 Calculate vertex hubness
import_scn              Import data for structural connectivity
                        analysis
lpba40                  Coordinates for data from the LONI
                        probabilistic brain atlas
make_brainGraph         Create a brainGraph object
make_ego_brainGraph     Create a graph of the union of multiple vertex
                        neighborhoods
make_empty_brainGraph   Create an empty graph with attributes for
                        brainGraph
make_glm_brainGraph     Create a graph with GLM-specific attributes
make_intersection_brainGraph
                        Create the intersection of graphs based on a
                        logical condition
make_mediate_brainGraph
                        Create a graph with mediation-specific
                        attributes
make_nbs_brainGraph     Create a graph with NBS-specific attributes
mtpc                    Multi-threshold permutation correction
plot.brainGraph         Plot a brain graph with a specific spatial
                        layout
plot.brainGraph_GLM     Plot a graph with results from brainGraph_GLM
plot.brainGraph_NBS     Plot a graph with results from the
                        network-based statistic
plot.brainGraph_mediate
                        Plot a graph with results from a mediation
                        analysis
plot.brainGraph_mtpc    Plot a graph with results from MTPC
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_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_rich_norm          Plot normalized rich club coefficients against
                        degree threshold
plot_vertex_measures    Plot vertex-level graph measures at a single
                        density or threshold
plot_volumetric         Plot group distributions of volumetric measures
                        for a given brain region
rich_club_attrs         Assign graph attributes based on rich-club
                        analysis
robustness              Analysis of network robustness
s_core                  Calculate the s-core of a network
set_brainGraph_attr     Set graph, vertex, and edge attributes common
                        in MRI analyses
small.world             Calculate graph small-worldness
symmetrize_mats         Create a symmetric matrix
vulnerability           Calculate graph vulnerability
write_brainnet          Write files to be used for visualization with
                        BrainNet Viewer
xfm.weights             Transform edge weights
