Eco-phylogenetic and community phylogenetic analyses.
Keeps community ecological and phylogenetic data matched up and
comparable using 'comparative.comm' objects. Wrappers for common
community phylogenetic indices ('pez.shape', 'pez.evenness',
'pez.dispersion', and 'pez.dissimilarity' metrics). Implementation
of Cavender-Bares (2004) correlation of phylogenetic and
ecological matrices ('fingerprint.regression'). Phylogenetic
Generalised Linear Mixed Models (PGLMMs; 'pglmm') following Ives &
Helmus (2011) and Rafferty & Ives (2013). Simulation of null
assemblages, traits, and phylogenies ('scape', 'sim.meta.comm').

Estimates False Discovery Proportion Under Arbitrary Covariance
Dependence
Jianqing Fan, Tracy Ke, Sydney Li and Lucy Xia
This package contains functions for performing multiple
testing and estimating the false discovery proportion (FDP).

Estimate the false discovery proportion (FDP) by Principal Factor Approximation method with general known and unknown covariance dependence.

R (>= 2.12.0), orthogonalsplinebasis (>= 0.1.2), methods,
utils, graphics, stats, MASS, mvbutils
Paired functional data analysis via principle component
analysis using orthogonalized spline basis functions.

Penalized Independent Component Analysis for Univariate
Functional Data
Marc Vidal Badia, Ana Mª Aguilera del Pino
Performs penalized independent component analysis for univariate functional data. Two alternative models are implemented, both based on the fourth order blind identification method.

Independent Component Analysis for Univariate Functional Data
Performs penalized independent component analysis for univariate functional data [<doi:10.3390/math9111243>].

Persistence Flamelets: Computation and Inferential Tools
Computes the Persistence Flamelets, a statistical tool for exploring the Topological Invariants of Scale-Space families introduced in Padellini and Brutti (2017) "Persistence Flamelets: multiscale Persistent Homology for kernel density exploration" <arXiv:1709.07097>.
Flamelets can be built from either sub/super level sets of arbitrary functions or
from a precomputed list of Persistence Diagrams.
In addition, this package provides functions to compute confidence bands for a Flamelet via bootstrap, assess significance of each feature,
clean a Flamelet from topological noise, perform a two sample permutation test for groups of Flamelets and it also implements a topological heuristic for bandwidth selection for kernel density estimators.
TDA, plotly, viridis, pbapply, graphics, stats, abind