NEWS

synergyMixR 1.0.1

?synergyMixR now answers: a package help page gives one paragraph on what the package is for, the main entry points grouped by task, and where to go next.
Runnable @examples added or corrected across 158 help pages. Each runs offline in seconds, writes nothing outside tempdir(), and is executed by R CMD check; anything needing a device, a download or an optional backend is fenced with the reason stated.
The README's quick start runs as written: it attaches the package, builds its own inputs, and uses only hard dependencies.

select_optimal_K_r_mfa_twostage() and select_optimal_K_r_mpca_twostage() failed on their own defaults -- criterion = "ICL" with icl_temperature = 2 -- because apply_temperature() is referenced but defined nowhere in the package, with globalVariables() keeping R CMD check quiet about it. The call sites now check, compute ICL from untempered responsibilities, which is ICL at T = 1, and warn that the tempering did not happen rather than inventing a transform.

Core mixture model implementations: MPCA (Mixture of Probabilistic Component Analyzers) and MFA (Mixture of Factor Analyzers)
EM algorithm implementations in C++ via Rcpp/RcppArmadillo for performance
Soft EM with responsibility-weighted updates
K-means based initialization for cluster assignments
Comprehensive model selection tools:
- BIC-based grid search over (K, r)
- ICL (Integrated Complete-data Likelihood) with temperature parameter
- Cross-Validation with 1-SE rule
- Bootstrap stability selection for K
- Two-stage selection for stability
r-selection framework: global, clusterwise, and hybrid modes
Rotation and flip utilities for synergy alignment
Complete EMG preprocessing pipeline (DC removal, bandpass, notch, rectification, envelope, normalization)
Visualization functions for muscle synergy analysis with unified ggplot2 theme
Simulation utilities for generating mixture data with optional AR(1) temporal noise
HPC parallel computation support via future/PBS
Comprehensive testing infrastructure with testthat
Quickstart vignette and package documentation