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Generate Sample Censoring
Provides functions to generate censored samples of type I, II and III, from any random sample generator. It also supplies the option to create left and right censorship. Along with this, the generation of samples with interval censoring is in the testing phase, with two options of fixed length intervals and random lengths.
Calculate Indices and Theoretical Physicochemical Properties of Protein Sequences
Includes functions to calculate several physicochemical properties and indices for amino-acid sequences as well as to read and plot 'XVG' output files from the 'GROMACS' molecular dynamics package.
Extra Features for 'reactable' Package
Enhanced functionality for 'reactable' in 'shiny' applications, offering interactive and dynamic data table capabilities with ease. With 'reactable.extras', easily integrate a range of functions and components to enrich your 'shiny' apps and facilitate user-friendly data exploration.
Clique Percolation for Networks
Clique percolation community detection for weighted and
unweighted networks as well as threshold and plotting functions.
For more information see Farkas et al. (2007)
Selecting Variable Subsets
A collection of functions which (i) assess the quality of variable subsets as surrogates for a full data set, in either an exploratory data analysis or in the context of a multivariate linear model, and (ii) search for subsets which are optimal under various criteria. Theoretical support for the heuristic search methods and exploratory data analysis criteria is in Cadima, Cerdeira, Minhoto (2003,
Extended Joint Models for Longitudinal and Time-to-Event Data
Fit joint models for longitudinal and time-to-event data under the Bayesian approach. Multiple longitudinal outcomes of mixed type (continuous/categorical) and multiple event times (competing risks and multi-state processes) are accommodated. Rizopoulos (2012, ISBN:9781439872864).
Explicit Interaction Community Models
Model fitting and species biotic interaction network topology selection for explicit interaction community models. Explicit interaction community models are an extension of binomial linear models for joint modelling of species communities, that incorporate both the effects of species biotic interactions and the effects of missing covariates. Species interactions are modelled as direct effects of each species on each of the others, and are estimated alongside the effects of missing covariates, modelled as latent factors. The package includes a penalized maximum likelihood fitting function, and a genetic algorithm for selecting the most parsimonious species interaction network topology.
Hierarchical and Variation Partitioning for Canonical Analysis
This function conducts variation partitioning and hierarchical partitioning to calculate the unique, shared (referred as to "common") and individual contributions of each predictor (or matrix) towards explained variation (R-square and adjusted R-square) on canonical analysis (RDA,CCA and db-RDA), applying the algorithm of Lai J.,Zou Y., Zhang J.,Peres-Neto P.(2022) Generalizing hierarchical and variation partitioning in multiple regression and canonical analyses using the rdacca.hp R package.Methods in Ecology and Evolution,13: 782-788
Bayesian Zero-Inflated Bernoulli Regression Model
Fits a Bayesian zero-inflated Bernoulli regression model handling (potentially) different covariates for the zero-inflated
and non zero-inflated parts. See Moriña D, Puig P, Navarro A. (2021)
Provides ZENIT-POLAR Substitution Cipher Method of Encryption
Implementation of ZENIT-POLAR substitution cipher method of encryption using by default the TENIS-POLAR cipher. This last cipher of encryption became famous through the collection of Brazilian books "Os Karas" by the author Pedro Bandeira. For more details, see "A Cryptographic Dictionary" (GC&CS, 1944).