Showing 17 of total 17 results (show query)
glmmtmb
glmmTMB:Generalized Linear Mixed Models using Template Model Builder
Fit linear and generalized linear mixed models with various extensions, including zero-inflation. The models are fitted using maximum likelihood estimation via 'TMB' (Template Model Builder). Random effects are assumed to be Gaussian on the scale of the linear predictor and are integrated out using the Laplace approximation. Gradients are calculated using automatic differentiation.
Maintained by Mollie Brooks. Last updated 6 hours ago.
314 stars 16.85 score 3.7k scripts 25 dependents
stan-dev
rstanarm:Bayesian Applied Regression Modeling via Stan
Estimates previously compiled regression models using the 'rstan' package, which provides the R interface to the Stan C++ library for Bayesian estimation. Users specify models via the customary R syntax with a formula and data.frame plus some additional arguments for priors.
Maintained by Ben Goodrich. Last updated 10 days ago.
bayesianbayesian-data-analysisbayesian-inferencebayesian-methodsbayesian-statisticsmultilevel-modelsrstanrstanarmstanstatistical-modelingcpp
393 stars 15.70 score 5.0k scripts 13 dependents
bioc
xcms:LC-MS and GC-MS Data Analysis
Framework for processing and visualization of chromatographically separated and single-spectra mass spectral data. Imports from AIA/ANDI NetCDF, mzXML, mzData and mzML files. Preprocesses data for high-throughput, untargeted analyte profiling.
Maintained by Steffen Neumann. Last updated 15 days ago.
immunooncologymassspectrometrymetabolomicsbioconductorfeature-detectionmass-spectrometrypeak-detectioncpp
196 stars 14.31 score 984 scripts 11 dependents
biodiverse
unmarked:Models for Data from Unmarked Animals
Fits hierarchical models of animal abundance and occurrence to data collected using survey methods such as point counts, site occupancy sampling, distance sampling, removal sampling, and double observer sampling. Parameters governing the state and observation processes can be modeled as functions of covariates. References: Kellner et al. (2023) <doi:10.1111/2041-210X.14123>, Fiske and Chandler (2011) <doi:10.18637/jss.v043.i10>.
Maintained by Ken Kellner. Last updated 9 days ago.
4 stars 13.02 score 652 scripts 12 dependents
alexiosg
rugarch:Univariate GARCH Models
ARFIMA, in-mean, external regressors and various GARCH flavors, with methods for fit, forecast, simulation, inference and plotting.
Maintained by Alexios Galanos. Last updated 3 months ago.
26 stars 12.25 score 1.3k scripts 16 dependents
robinhankin
elliptic:Weierstrass and Jacobi Elliptic Functions
A suite of elliptic and related functions including Weierstrass and Jacobi forms. Also includes various tools for manipulating and visualizing complex functions.
Maintained by Robin K. S. Hankin. Last updated 24 days ago.
3 stars 9.31 score 54 scripts 79 dependents
flr
FLCore:Core Package of FLR, Fisheries Modelling in R
Core classes and methods for FLR, a framework for fisheries modelling and management strategy simulation in R. Developed by a team of fisheries scientists in various countries. More information can be found at <http://flr-project.org/>.
Maintained by Iago Mosqueira. Last updated 9 days ago.
fisheriesflrfisheries-modelling
16 stars 8.78 score 956 scripts 23 dependents
novartis
RBesT:R Bayesian Evidence Synthesis Tools
Tool-set to support Bayesian evidence synthesis. This includes meta-analysis, (robust) prior derivation from historical data, operating characteristics and analysis (1 and 2 sample cases). Please refer to Weber et al. (2021) <doi:10.18637/jss.v100.i19> for details on applying this package while Neuenschwander et al. (2010) <doi:10.1177/1740774509356002> and Schmidli et al. (2014) <doi:10.1111/biom.12242> explain details on the methodology.
Maintained by Sebastian Weber. Last updated 2 months ago.
bayesianclinicalhistorical-datameta-analysiscpp
23 stars 7.94 score 115 scripts 5 dependents
smoeding
usl:Analyze System Scalability with the Universal Scalability Law
The Universal Scalability Law (Gunther 2007) <doi:10.1007/978-3-540-31010-5> is a model to predict hardware and software scalability. It uses system capacity as a function of load to forecast the scalability for the system.
Maintained by Stefan Moeding. Last updated 3 years ago.
scalabilityuniversal-scalability-lawusl
36 stars 6.32 score 117 scriptsbioc
PROcess:Ciphergen SELDI-TOF Processing
A package for processing protein mass spectrometry data.
Maintained by Xiaochun Li. Last updated 5 months ago.
immunooncologymassspectrometryproteomics
6.04 score 552 scripts
cran
gaston:Genetic Data Handling (QC, GRM, LD, PCA) & Linear Mixed Models
Manipulation of genetic data (SNPs). Computation of GRM and dominance matrix, LD, heritability with efficient algorithms for linear mixed model (AIREML). Dandine et al <doi:10.1159/000488519>.
Maintained by Hervé Perdry. Last updated 1 years ago.
5 stars 6.02 score 12 dependents
ropensci
GLMMcosinor:Fit a Cosinor Model Using a Generalized Mixed Modeling Framework
Allows users to fit a cosinor model using the 'glmmTMB' framework. This extends on existing cosinor modeling packages, including 'cosinor' and 'circacompare', by including a wide range of available link functions and the capability to fit mixed models. The cosinor model is described by Cornelissen (2014) <doi:10.1186/1742-4682-11-16>.
Maintained by Rex Parsons. Last updated 5 months ago.
1 stars 5.77 score 22 scripts
agalecki
nlmeU:Datasets and Utility Functions Enhancing Functionality of 'nlme' Package
Datasets and utility functions enhancing functionality of nlme package. Datasets, functions and scripts are described in book titled 'Linear Mixed-Effects Models: A Step-by-Step Approach' by Galecki and Burzykowski (2013). Package is under development.
Maintained by Andrzej Galecki. Last updated 3 years ago.
5.08 score 135 scripts 6 dependents
tesselle
kairos:Analysis of Chronological Patterns from Archaeological Count Data
A toolkit for absolute and relative dating and analysis of chronological patterns. This package includes functions for chronological modeling and dating of archaeological assemblages from count data. It provides methods for matrix seriation. It also allows to compute time point estimates and density estimates of the occupation and duration of an archaeological site.
Maintained by Nicolas Frerebeau. Last updated 25 days ago.
chronologymatrix-seriationarchaeologyarchaeological-science
4.66 score 11 scripts 1 dependents
fernandalschumacher
skewlmm:Scale Mixture of Skew-Normal Linear Mixed Models
It fits scale mixture of skew-normal linear mixed models using either an expectation–maximization (EM) type algorithm or its accelerated version (Damped Anderson Acceleration with Epsilon Monotonicity, DAAREM), including some possibilities for modeling the within-subject dependence. Details can be found in Schumacher, Lachos and Matos (2021) <doi:10.1002/sim.8870>.
Maintained by Fernanda L. Schumacher. Last updated 2 months ago.
6 stars 4.43 score 10 scriptsbioc
immunoClust:immunoClust - Automated Pipeline for Population Detection in Flow Cytometry
immunoClust is a model based clustering approach for Flow Cytometry samples. The cell-events of single Flow Cytometry samples are modelled by a mixture of multinominal normal- or t-distributions. The cell-event clusters of several samples are modelled by a mixture of multinominal normal-distributions aiming stable co-clusters across these samples.
Maintained by Till Soerensen. Last updated 9 days ago.
clusteringflowcytometrysinglecellcellbasedassaysimmunooncologygslcpp
4.41 score 4 scripts
r-forge
distrEllipse:S4 Classes for Elliptically Contoured Distributions
Distribution (S4-)classes for elliptically contoured distributions (based on package 'distr').
Maintained by Peter Ruckdeschel. Last updated 2 months ago.
3.46 score 18 scripts