Package index • plsrri

All functions

MvaMethod: MvaMethod R6 Class
add_behavior(): Add Behavior Data to PLS Specification
add_conditions(): Add Conditions to PLS Specification
add_design(): Add Design Contrasts to PLS Specification
add_group_labels(): Add Group Labels
add_site_labels(): Add Site Labels
add_subjects(): Add Subjects to PLS Specification
add_subjects_bids_manifest(): Add Subjects from BIDS as a Lagged NIfTI Manifest
add_subjects_manifest(): Add Subjects from a Lagged NIfTI Manifest
add_subjects_map_manifest(): Add Subjects from a Map Manifest
add_trial_data(): Add Trial-Level Data for Within-Subject Seed PLS
analysis-api: High-Level Analysis API
behav_pls(): Behavioral Correlates PLS
benchmark_fast_paths(): Benchmark Exact Fast Paths
bsr(): Extract Bootstrap Ratios
builder-behavior: Builder API: Add Behavior/Design Data
builder-conditions: Builder API: Add Conditions
builder-config: Builder API: Configure Analysis
builder-manifest: Builder API: Add Subjects from Manifest / GDS
builder-map-manifest: Builder API: Add Subjects from Map Manifest
builder-observation-order: Builder Helpers: Observation Ordering
builder-run: Builder API: Run Analysis
builder-subjects: Builder API: Add Subjects
check_gui_deps(): Check GUI Dependencies
confidence(): Get Confidence Intervals
configure(): Configure PLS Analysis
design_weights(): Extract Design/Behavior Weights
evaluate_prediction(): Evaluate Predictive Performance with Nested Cross-Validation
feature_weights(): Extract Feature Weights
generate_contrasts(): Generate Common Contrasts
get_condition_rows(): Get Condition Indices
get_method(): Get a Registered Method by Name
importance(): Extract Component Importance
launch_pls_gui(): Launch PLS GUI
list_methods(): List All Registered Methods
loadings(): Extract Loadings
misssvd(): SVD with Missing Value Handling
mva-accessors: Generic Accessors for Multivariate Analysis Results
mva-classes: Multivariate Analysis Data Classes
mva-method: Multivariate Analysis Method Protocol
mva-pls-methods: PLS Method Implementations for MvaMethod Protocol
mva_result_to_pls_result(): Convert an mva_result back to pls_result
n_components(): Get Number of Components
n_features(): Get Number of Voxels/Features
n_lv(): Get Number of Latent Variables
new_mva_decomposition(): Create a Multivariate Decomposition Object
new_mva_result(): Create a Multivariate Analysis Result
normalize_rows(): Normalize Rows to Unit Length
normalize_rows_cpp(): Fast Row Normalization
pipeline-analysis: Pipeline Analysis Adapters
pipeline-attach: Pipeline Attach API
pipeline-contracts: Pipeline Data Contracts
pipeline-core: Pipeline Core Helpers
pipeline-discovery: Pipeline Discovery Stages
pipeline-firstlevel: Pipeline First-Level Stages
pipeline-planning: Pipeline Planning Helpers
pipeline-pls: Pipeline PLS Stages
pipeline-spec: Pipeline Specification Helpers
pipeline_attach_summary(): Summarize a Pipeline Output Root
pipeline_build_pls_spec_from_ui(): Build a PLS Specification from UI Options
pipeline_discover(): Discover BIDS Inputs for plscli
pipeline_firstlevel_plan(): Plan First-Level Work Units
pipeline_firstlevel_run(): Run First-Level Estimation
pipeline_load_analysis_plan(): Load an Analysis Plan from Attached Outputs
pipeline_pls_plan(): Build a PLS Observation Manifest from First-Level Outputs
pipeline_pls_run(): Run PLS from a Planned Manifest
pipeline_render_report(): Render a Report from plscli Artifacts
pipeline_summarize(): Summarize Pipeline Stage Outputs
pipeline_validate(): Validate a Pipeline and Write Validation Output
plot-brain: Brain Slice Plots for PLS
plot-loadings: Loading Plots for PLS
plot-scores: Score Plots for PLS
plot(<pls_result>): Plot S3 Method for pls_result
plot_brain(): Plot Brain Salience or BSR Map
plot_brain_ortho(): Plot Orthogonal Brain Views
plot_brain_overlay(): Plot Brain Overlay
plot_brain_summary(): Plot Brain Summary
plot_loadings(): Plot PLS Loadings
plot_pls_summary(): Plot PLS Summary
plot_scores(): Plot PLS Scores
plot_singular_values(): Plot Singular Values
pls-accessors: Result Accessors for PLS
pls-analysis: Core PLS Analysis Engine
pls-bootstrap: Bootstrap Testing for PLS
pls-classes: S3 Classes for PLS Analysis
pls-covariance: Covariance/Correlation Matrix Construction
pls-gui: Shiny GUI Launcher
pls-meancentering: Mean-Centering Operations for PLS
pls-permutation: Permutation Testing for PLS
pls-reports: Quarto Report Generation for PLS
pls-scores: Brain and Behavior Score Computation
pls-splithalf: Split-Half Validation for PLS
pls-statistics: Statistical Functions for PLS
pls-svd: SVD Operations for PLS
pls-theme: Modern PLS Plot Theme
pls-xcor: Cross-Correlation Operations
pls_analysis(): Run PLS Analysis
pls_behav_scores(): Get Behavior Scores
pls_boot_check(): Check Bootstrap Feasibility
pls_boot_ci(): Compute Bootstrap Confidence Intervals
pls_boot_order(): Generate Bootstrap Orders
pls_brain_scores(): Compute Brain Scores
pls_colors(): PLS Color Palettes
pls_corr_maps(): Correlation Maps for Behavior PLS
pls_corr_maps_notall(): Correlation Maps for Subset of Conditions
pls_design_scores(): Compute Design Scores
pls_get_covcor(): Get Covariance/Correlation for SVD
pls_is_low_variability(): Check for Low Variability
pls_lv_corrs(): Compute LV Correlations
pls_meancentering(): Apply Mean-Centering to Data Matrix
pls_method_int_to_name(): Map PLS Method Integer to Canonical String Name
pls_method_label(): Map PLS Method (Integer or String) to Human-Readable Label
pls_percentile(): Compute Percentile
pls_perm_order(): Generate Permutation Orders
pls_pvalue(): Compute P-values from Distribution
pls_result_to_mva_result(): Convert a pls_result to mva_result
pls_spec(): Create a PLS Specification Object
pls_split_multiblock_v(): Extract Task/Behavior Scores Separately (Multiblock)
pls_splithalf_test(): Run Split-Half Validation
pls_svd(): Standard PLS SVD
pls_task_mean(): Compute Task Means
pls_task_mean_ssb(): Compute Task Means with Unequal Group Sizes
pls_xcor(): Cross-Correlation of Two Matrices
pls_xcor_cpp(): Fast Cross-Correlation (All Modes)
plscli: plscli Command-Line Entry Point
plscli_main(): Run the plscli Dispatcher
predict-cv: Predictive Cross-Validation for PLS
prepare_firstlevel(): Prepare First-Level Artifacts
prepare_pls(): Prepare a Runnable PLS Specification
procrustes_boot_cpp(): Procrustes Rotation with Sign Flipping
procrustes_cpp(): Procrustes Rotation
project_scores(): Project Held-Out Observations into a Fitted Score Space
quick_pls(): Quick Run for Simple Analyses
read_pipeline_spec(): Read a plscli Pipeline Specification
register_method(): Register a Multivariate Analysis Method
render_pls_report(): Render a PLS Report
render_report(): Render PLS Report
run(): Run PLS Analysis from Specification
run_pls(): Run PLS from a Prepared or Saved Input
salience(): Extract Saliences (Brain Loadings)
scale_color_pls(): PLS Diverging Color Scale
scale_color_pls_discrete(): PLS Qualitative Color Scale
scale_fill_pls(): PLS Diverging Fill Scale
scale_fill_pls_discrete(): PLS Qualitative Fill Scale
scores(): Extract Scores
seed_pls(): Seed PLS (Functional Connectivity)
set_parallel(): Set Parallel Processing Options
significance(): Get Significance Values (P-values)
singular_values(): Extract Singular Values
site_pooling_diagnostics(): Site-Pooling Diagnostics for Multisite PLS
stability(): Extract Stability Estimates
task_mean_cpp(): Fast Task Mean Computation
theme_pls(): PLS Plot Theme
validate_pipeline_spec(): Validate a plscli Pipeline Specification
variance_explained(): Compute Explained Variance
write_pipeline_template(): Write an Example plscli YAML Specification
write_results(): Write Results to File
ws-seed-pls: Within-Subject Seed PLS (ws-fcMRI)
ws_seed_correlation(): Compute Within-Subject Seed-Voxel Correlation Maps
ws_seed_pls(): Within-Subject Seed PLS Analysis