# Estimate Brain Networks and Connectivity with ICA and Empirical Priors

## Documentation for package ‘templateICAr’ version 0.6.4

- DESCRIPTION file.
- Package NEWS.

## Help Pages

activations | Activations of (s)tICA
dual_reg | Dual Regression
EM_FCtemplateICA | EM Algorithm for FC Template ICA Model
EM_templateICA | EM Algorithms for Template ICA Models
EM_templateICA.independent | EM Algorithms for Template ICA Models
EM_templateICA.spatial | EM Algorithms for Template ICA Models
estimate_nu_matrix | Estimate IW dof parameter nu based on method of moments
estimate_template | Estimate template
estimate_template.cifti | Estimate template
estimate_template.gifti | Estimate template
estimate_template.nifti | Estimate template
estimate_template_from_DR | Estimate template from DR
export_template | Export template
Gibbs_AS_posteriorCPP | Use a Gibbs sampler for the A and S variables (E-step of the EM)
groupICA.cifti | Perform group ICA based on CIFTI data
IW_var | Compute theoretical Inverse-Wishart variance of covariance matrix elements
make_mesh | Make INLA mesh from '"surf"' object
make_mesh_2D | Make 2D INLA mesh
norm_BOLD | Normalize BOLD data
PCA | PCA
plot.template.cifti | Plot template
plot.template.gifti | Plot template
plot.template.matrix | Plot template
plot.template.nifti | Plot template
plot.tICA.cifti | Plot template
plot.tICA.matrix | Plot template
plot.tICA.nifti | Plot template
plot.tICA_act.cifti | Plot activations
print.summary.template.cifti | Summarize a '"template.cifti"' object
print.summary.template.gifti | Summarize a '"template.gifti"' object
print.summary.template.matrix | Summarize a '"template.matrix"' object
print.summary.template.nifti | Summarize a '"template.nifti"' object
print.summary.tICA.cifti | Summarize a '"tICA.cifti"' object
print.summary.tICA.matrix | Summarize a '"tICA.matrix"' object
print.summary.tICA.nifti | Summarize a '"tICA.nifti"' object
print.summary.tICA_act.cifti | Summarize a '"tICA_act.cifti"' object
print.summary.tICA_act.matrix | Summarize a '"tICA_act.matrix"' object
print.template.cifti | Summarize a '"template.cifti"' object
print.template.gifti | Summarize a '"template.gifti"' object
print.template.matrix | Summarize a '"template.matrix"' object
print.template.nifti | Summarize a '"template.nifti"' object
print.tICA.cifti | Summarize a '"tICA.cifti"' object
print.tICA.matrix | Summarize a '"tICA.matrix"' object
print.tICA.nifti | Summarize a '"tICA.nifti"' object
print.tICA_act.cifti | Summarize a '"tICA_act.cifti"' object
print.tICA_act.matrix | Summarize a '"tICA_act.matrix"' object
resample_template | Resample CIFTI template
summary.template.cifti | Summarize a '"template.cifti"' object
summary.template.gifti | Summarize a '"template.gifti"' object
summary.template.matrix | Summarize a '"template.matrix"' object
summary.template.nifti | Summarize a '"template.nifti"' object
summary.tICA.cifti | Summarize a '"tICA.cifti"' object
summary.tICA.matrix | Summarize a '"tICA.matrix"' object
summary.tICA.nifti | Summarize a '"tICA.nifti"' object
summary.tICA_act.cifti | Summarize a '"tICA_act.cifti"' object
summary.tICA_act.matrix | Summarize a '"tICA_act.matrix"' object
templateICA | Template ICA
UpdateTheta_FCtemplateICA | Update FC Template ICA parameters (tau_sq, alpha, G)
UpdateTheta_FCtemplateICAcpp | Update parameters (M-step of the EM)
UpdateTheta_templateICA | Parameter Estimates in EM Algorithm for Template ICA Model
UpdateTheta_templateICA.independent | Parameter Estimates in EM Algorithm for Template ICA Model
UpdateTheta_templateICA.spatial | Parameter Estimates in EM Algorithm for Template ICA Model
var_sq_err | Compute the error between empirical and theoretical variance of covariance matrix elements