activations | Activations of (spatial) template ICA |
add_str | Combine additive terms in string |
bdiag_m | Block diagonal matrix |
bdiag_m2 | Bdiag m2 |
check_parallel_packages | Check for required parallel packages |
check_req_ifti_pkg | Check required packages for the data format |
Chol_samp_fun | Cholesky-based FC sampling |
compute_LL_std | Compute LL for EM Template ICA |
compute_mu_s | Compute posterior mean and precision of s |
compute_R_inv | Compute SPDE and prior precision matrices for S |
dim_reduce | PCA-based Dimension Reduction and Prewhitening |
dual_reg2 | Dual Regression wrapper |
EM_templateICA | EM Algorithms for Template ICA Models |
estimate.ESS | Estimation of effective sample size |
estimate_nu | Universally estimate IW dof parameter nu based on method of... |
estimate_nu_matrix | Estimate IW dof parameter nu based on method of moments |
estimate_template | Estimate template |
estimate_template_FC | Estimate FC template |
estimate_template_from_DR | Estimate template from DR |
estimate_template_from_DR_two | Estimate template from DR estimates (when there are two... |
export_template | Export template |
format_activation_name | Format activation name |
get_FORMAT | Get FORMAT from format |
getInvCovAR | Compute inverse covariance matrix for AR process (up to a... |
groupICA.cifti | Perform group ICA based on CIFTI data |
GSR_Param | GSR |
halflogdetX | Half log determinant |
hpf_param | hpf |
INLA_check | Check for INLA |
IW_var | Compute theoretical Inverse-Wishart variance of covariance... |
IW_var_cor | Compute theoretical Inverse-Wishart variance of correlation... |
lik | Compute likelihood in SPDE model for ESS estimation |
LL2_kappa | Compute part of kappa log-likelihood |
LL_SQUAREM | Log-likelihood SQUAREM |
loglik_kappa_est | Kappa log-likelihood |
make_mask | Create a mask based on vertices that are invalid |
make_mesh | Make INLA mesh from '"surf"' object |
make_mesh_2D | Make 2D INLA mesh |
make_Pmat | Make permutation matrix |
norm_BOLD | Normalize BOLD data |
orthonorm | Orthonormalizes a square, invertible matrix |
plot.template.cifti | Plot template |
plot.template.gifti | Plot template |
plot.template.matrix | Plot template |
plot.template.nifti | Plot template |
plot.tICA_act.cifti | Plot activations |
plot.tICA.cifti | Plot template |
plot.tICA.matrix | Plot template |
plot.tICA.nifti | Plot template |
pw_estimate | Estimate residual autocorrelation for prewhitening |
Q2_max_check | Check 'Q2_max' |
removebs_template | Remove brain structure from CIFTI template |
resample_template | Resample CIFTI template |
rm_nuisIC | Remove nuisance ICs from data |
scale_Param | scale |
sqrt_XtX | Compute matrix square root of X'X |
struct_template | Apply data structure to templates |
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_act.cifti | Summarize a '"tICA_act.cifti"' object |
summary.tICA_act.matrix | Summarize a '"tICA_act.matrix"' object |
summary.tICA_act.nifti | Summarize a '"tICA_act.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 |
templateICA | Template ICA |
TR_param | TR |
update_A | Update A for VB FC Template ICA using IW prior on FC |
update_A_Chol | Update A for VB FC Template ICA using Cholesky prior for FC |
update_S | Update S for VB FC Template ICA |
update_tau2 | Update tau for VB FC Template ICA |
UpdateThetaSQUAREM_templateICA | Update theta SQUAREM |
UpdateTheta_templateICA | Parameter Estimates in EM Algorithm for Template ICA Model |
UT2mat | Transform upper-triangular elements to matrix form |
var_sq_err | Compute the error between empirical and theoretical variance... |
var_sq_err_constrained | Compute the overall error between empirical and theoretical... |
varTol_Param | varTol |
VB_FCtemplateICA | VB_FCtemplateICA |
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