Man pages for templateICAr
Estimate Brain Networks and Connectivity with ICA and Empirical Priors

activationsActivations of (spatial) template ICA
add_strCombine additive terms in string
bdiag_mBlock diagonal matrix
bdiag_m2Bdiag m2
check_parallel_packagesCheck for required parallel packages
check_req_ifti_pkgCheck required packages for the data format
Chol_samp_funCholesky-based FC sampling
compute_LL_stdCompute LL for EM Template ICA
compute_mu_sCompute posterior mean and precision of s
compute_R_invCompute SPDE and prior precision matrices for S
dim_reducePCA-based Dimension Reduction and Prewhitening
dual_reg2Dual Regression wrapper
EM_templateICAEM Algorithms for Template ICA Models
estimate.ESSEstimation of effective sample size
estimate_nuUniversally estimate IW dof parameter nu based on method of...
estimate_nu_matrixEstimate IW dof parameter nu based on method of moments
estimate_templateEstimate template
estimate_template_FCEstimate FC template
estimate_template_from_DREstimate template from DR
estimate_template_from_DR_twoEstimate template from DR estimates (when there are two...
export_templateExport template
format_activation_nameFormat activation name
get_FORMATGet FORMAT from format
getInvCovARCompute inverse covariance matrix for AR process (up to a...
groupICA.ciftiPerform group ICA based on CIFTI data
GSR_ParamGSR
halflogdetXHalf log determinant
hpf_paramhpf
INLA_checkCheck for INLA
IW_varCompute theoretical Inverse-Wishart variance of covariance...
IW_var_corCompute theoretical Inverse-Wishart variance of correlation...
likCompute likelihood in SPDE model for ESS estimation
LL2_kappaCompute part of kappa log-likelihood
LL_SQUAREMLog-likelihood SQUAREM
loglik_kappa_estKappa log-likelihood
make_maskCreate a mask based on vertices that are invalid
make_meshMake INLA mesh from '"surf"' object
make_mesh_2DMake 2D INLA mesh
make_PmatMake permutation matrix
norm_BOLDNormalize BOLD data
orthonormOrthonormalizes a square, invertible matrix
plot.template.ciftiPlot template
plot.template.giftiPlot template
plot.template.matrixPlot template
plot.template.niftiPlot template
plot.tICA_act.ciftiPlot activations
plot.tICA.ciftiPlot template
plot.tICA.matrixPlot template
plot.tICA.niftiPlot template
pw_estimateEstimate residual autocorrelation for prewhitening
Q2_max_checkCheck 'Q2_max'
removebs_templateRemove brain structure from CIFTI template
resample_templateResample CIFTI template
rm_nuisICRemove nuisance ICs from data
scale_Paramscale
sqrt_XtXCompute matrix square root of X'X
struct_templateApply data structure to templates
summary.template.ciftiSummarize a '"template.cifti"' object
summary.template.giftiSummarize a '"template.gifti"' object
summary.template.matrixSummarize a '"template.matrix"' object
summary.template.niftiSummarize a '"template.nifti"' object
summary.tICA_act.ciftiSummarize a '"tICA_act.cifti"' object
summary.tICA_act.matrixSummarize a '"tICA_act.matrix"' object
summary.tICA_act.niftiSummarize a '"tICA_act.nifti"' object
summary.tICA.ciftiSummarize a '"tICA.cifti"' object
summary.tICA.matrixSummarize a '"tICA.matrix"' object
summary.tICA.niftiSummarize a '"tICA.nifti"' object
templateICATemplate ICA
TR_paramTR
update_AUpdate A for VB FC Template ICA using IW prior on FC
update_A_CholUpdate A for VB FC Template ICA using Cholesky prior for FC
update_SUpdate S for VB FC Template ICA
update_tau2Update tau for VB FC Template ICA
UpdateThetaSQUAREM_templateICAUpdate theta SQUAREM
UpdateTheta_templateICAParameter Estimates in EM Algorithm for Template ICA Model
UT2matTransform upper-triangular elements to matrix form
var_sq_errCompute the error between empirical and theoretical variance...
var_sq_err_constrainedCompute the overall error between empirical and theoretical...
varTol_ParamvarTol
VB_FCtemplateICAVB_FCtemplateICA
templateICAr documentation built on April 3, 2025, 7:41 p.m.