Showing 109 of total 109 results (show query)
yihui
animation:A Gallery of Animations in Statistics and Utilities to Create Animations
Provides functions for animations in statistics, covering topics in probability theory, mathematical statistics, multivariate statistics, non-parametric statistics, sampling survey, linear models, time series, computational statistics, data mining and machine learning. These functions may be helpful in teaching statistics and data analysis. Also provided in this package are a series of functions to save animations to various formats, e.g. Flash, 'GIF', HTML pages, 'PDF' and videos. 'PDF' animations can be inserted into 'Sweave' / 'knitr' easily.
Maintained by Yihui Xie. Last updated 2 years ago.
animationstatistical-computingstatistical-graphicsstatistics
9.8 match 208 stars 12.08 score 2.5k scripts 29 dependents
squidlobster
castor:Efficient Phylogenetics on Large Trees
Efficient phylogenetic analyses on massive phylogenies comprising up to millions of tips. Functions include pruning, rerooting, calculation of most-recent common ancestors, calculating distances from the tree root and calculating pairwise distances. Calculation of phylogenetic signal and mean trait depth (trait conservatism), ancestral state reconstruction and hidden character prediction of discrete characters, simulating and fitting models of trait evolution, fitting and simulating diversification models, dating trees, comparing trees, and reading/writing trees in Newick format. Citation: Louca, Stilianos and Doebeli, Michael (2017) <doi:10.1093/bioinformatics/btx701>.
Maintained by Stilianos Louca. Last updated 4 months ago.
20.4 match 2 stars 5.75 score 450 scripts 9 dependents
marinapapa
swaRmverse:Swarm Space Creation
Provides a pipeline for the comparative analysis of collective movement data (e.g. fish schools, bird flocks, baboon troops) by processing 2-dimensional positional data (x,y,t) from GPS trackers or computer vision tracking systems, discretizing events of collective motion, calculating a set of established metrics that characterize each event, and placing the events in a multi-dimensional swarm space constructed from these metrics. The swarm space concept, the metrics and data sets included are described in: Papadopoulou Marina, Furtbauer Ines, O'Bryan Lisa R., Garnier Simon, Georgopoulou Dimitra G., Bracken Anna M., Christensen Charlotte and King Andrew J. (2023) <doi:10.1098/rstb.2022.0068>.
Maintained by Marina Papadopoulou. Last updated 5 months ago.
22.1 match 2 stars 5.13 score 15 scripts
jamesramsay5
fda:Functional Data Analysis
These functions were developed to support functional data analysis as described in Ramsay, J. O. and Silverman, B. W. (2005) Functional Data Analysis. New York: Springer and in Ramsay, J. O., Hooker, Giles, and Graves, Spencer (2009). Functional Data Analysis with R and Matlab (Springer). The package includes data sets and script files working many examples including all but one of the 76 figures in this latter book. Matlab versions are available by ftp from <https://www.psych.mcgill.ca/misc/fda/downloads/FDAfuns/>.
Maintained by James Ramsay. Last updated 4 months ago.
9.0 match 3 stars 12.29 score 2.0k scripts 143 dependents
chaoranhu
smam:Statistical Modeling of Animal Movements
Animal movement models including Moving-Resting Process with Embedded Brownian Motion (Yan et al., 2014, <doi:10.1007/s10144-013-0428-8>; Pozdnyakov et al., 2017, <doi:10.1007/s11009-017-9547-6>), Brownian Motion with Measurement Error (Pozdnyakov et al., 2014, <doi:10.1890/13-0532.1>), Moving-Resting-Handling Process with Embedded Brownian Motion (Pozdnyakov et al., 2020, <doi:10.1007/s11009-020-09774-1>), Moving-Resting Process with Measurement Error (Hu et al., 2021, <doi:10.1111/2041-210X.13694>), Moving-Moving Process with two Embedded Brownian Motions.
Maintained by Chaoran Hu. Last updated 1 years ago.
animal-movementbrownian-motionhidden-markov-modelhidden-statesmeasurement-errortelegraph-processgslcpp
22.3 match 3 stars 4.52 score 11 scripts
tobiste
tectonicr:Analyzing the Orientation of Maximum Horizontal Stress
Models the direction of the maximum horizontal stress using relative plate motion parameters. Statistical algorithms to evaluate the modeling results compared with the observed data. Provides plots to visualize the results. Methods described in Stephan et al. (2023) <doi:10.1038/s41598-023-42433-2> and Wdowinski (1998) <doi:10.1016/S0079-1946(98)00091-3>.
Maintained by Tobias Stephan. Last updated 15 days ago.
geologystructural-geologytectonics
12.4 match 7 stars 7.26 score 33 scripts
mages
googleVis:R Interface to Google Charts
R interface to Google's chart tools, allowing users to create interactive charts based on data frames. Charts are displayed locally via the R HTTP help server. A modern browser with an Internet connection is required. The data remains local and is not uploaded to Google.
Maintained by Markus Gesmann. Last updated 10 months ago.
6.6 match 361 stars 12.98 score 2.4k scripts 11 dependents
ropensci
pathviewr:Wrangle, Analyze, and Visualize Animal Movement Data
Tools to import, clean, and visualize movement data, particularly from motion capture systems such as Optitrack's 'Motive', the Straw Lab's 'Flydra', or from other sources. We provide functions to remove artifacts, standardize tunnel position and tunnel axes, select a region of interest, isolate specific trajectories, fill gaps in trajectory data, and calculate 3D and per-axis velocity. For experiments of visual guidance, we also provide functions that use subject position to estimate perception of visual stimuli.
Maintained by Vikram B. Baliga. Last updated 2 years ago.
animal-movementflydramotionmovement-dataoptitracktrajectoriestrajectory-analysisvisual-guidancevisual-perception
12.6 match 8 stars 6.56 score 102 scripts
spsanderson
healthyR.ts:The Time Series Modeling Companion to 'healthyR'
Hospital time series data analysis workflow tools, modeling, and automations. This library provides many useful tools to review common administrative time series hospital data. Some of these include average length of stay, and readmission rates. The aim is to provide a simple and consistent verb framework that takes the guesswork out of everything.
Maintained by Steven Sanderson. Last updated 5 months ago.
aiarima-forecastingarima-modeletsforecastingggplot2machine-learningmodelingprophettime-seriestime-series-analysisworkflows
10.3 match 19 stars 7.58 score 56 scripts 1 dependents
clementcalenge
adehabitatLT:Analysis of Animal Movements
A collection of tools for the analysis of animal movements.
Maintained by Clement Calenge. Last updated 6 months ago.
7.5 match 6 stars 8.60 score 370 scripts 12 dependents
kingaa
ouch:Ornstein-Uhlenbeck Models for Phylogenetic Comparative Hypotheses
Fit and compare Ornstein-Uhlenbeck models for evolution along a phylogenetic tree.
Maintained by Aaron A. King. Last updated 4 months ago.
adaptive-regimebrownian-motionornstein-uhlenbeckornstein-uhlenbeck-modelsouchphylogenetic-comparative-hypothesesphylogenetic-comparative-methodsphylogenetic-datareact
9.4 match 15 stars 6.87 score 68 scripts 4 dependents
spatpomp-org
spatPomp:Inference for Spatiotemporal Partially Observed Markov Processes
Inference on panel data using spatiotemporal partially-observed Markov process (SpatPOMP) models. The 'spatPomp' package extends 'pomp' to include algorithms taking advantage of the spatial structure in order to assist with handling high dimensional processes. See Asfaw et al. (2024) <doi:10.48550/arXiv.2101.01157> for further description of the package.
Maintained by Edward Ionides. Last updated 4 months ago.
8.7 match 2 stars 7.38 score 93 scripts
bart1
move:Visualizing and Analyzing Animal Track Data
Contains functions to access movement data stored in 'movebank.org' as well as tools to visualize and statistically analyze animal movement data, among others functions to calculate dynamic Brownian Bridge Movement Models. Move helps addressing movement ecology questions.
Maintained by Bart Kranstauber. Last updated 4 months ago.
7.3 match 8.74 score 690 scripts 3 dependents
hwborchers
pracma:Practical Numerical Math Functions
Provides a large number of functions from numerical analysis and linear algebra, numerical optimization, differential equations, time series, plus some well-known special mathematical functions. Uses 'MATLAB' function names where appropriate to simplify porting.
Maintained by Hans W. Borchers. Last updated 1 years ago.
4.5 match 29 stars 12.34 score 6.6k scripts 931 dependents
louisaslett
BrownianMotion:Brownian Motion Simulations
An implementation of algorithms for simulation of (multivariate) Brownian motion trajectories, including simple unconditional simulation, Brownian bridges, as well as layered and localised Brownian motion simulators.
Maintained by Louis Aslett. Last updated 8 months ago.
17.1 match 1 stars 3.00 score 1 scripts
fkeck
phylosignal:Exploring the Phylogenetic Signal in Continuous Traits
A collection of tools to explore the phylogenetic signal in univariate and multivariate data. The package provides functions to plot traits data against a phylogenetic tree, different measures and tests for the phylogenetic signal, methods to describe where the signal is located and a phylogenetic clustering method.
Maintained by Francois Keck. Last updated 1 years ago.
6.3 match 16 stars 7.22 score 104 scripts
jonathanlees
RSEIS:Seismic Time Series Analysis Tools
Multiple interactive codes to view and analyze seismic data, via spectrum analysis, wavelet transforms, particle motion, hodograms. Includes general time-series tools, plotting, filtering, interactive display.
Maintained by Jonathan M. Lees. Last updated 6 months ago.
10.0 match 3 stars 4.27 score 262 scripts 4 dependents
jirotubuyaki
Jdmbs:Monte Carlo Option Pricing Algorithms for Jump Diffusion Models with Correlational Companies
Option is a one of the financial derivatives and its pricing is an important problem in practice. The process of stock prices are represented as Geometric Brownian motion [Black (1973) <doi:10.1086/260062>] or jump diffusion processes [Kou (2002) <doi:10.1287/mnsc.48.8.1086.166>]. In this package, algorithms and visualizations are implemented by Monte Carlo method in order to calculate European option price for three equations by Geometric Brownian motion and jump diffusion processes and furthermore a model that presents jumps among companies affect each other.
Maintained by Masashi Okada. Last updated 5 years ago.
black-scholesbrownian-motioncomputational-financederivativesfinancefinancial-analysisfinancial-engineeringjump-diffusionmonte-carlooptionoption-pricingsdestochastic-differential-equationsstochastic-processesstock-market
8.3 match 28 stars 5.15 score 6 scripts
jcrodriguez1989
rco:The R Code Optimizer
Automatically apply different strategies to optimize R code. 'rco' functions take R code as input, and returns R code as output.
Maintained by Juan Cruz Rodriguez. Last updated 4 months ago.
compilerfastgcchpcoptimizationoptimizer
6.2 match 82 stars 6.73 score
mlcollyer
RRPP:Linear Model Evaluation with Randomized Residuals in a Permutation Procedure
Linear model calculations are made for many random versions of data. Using residual randomization in a permutation procedure, sums of squares are calculated over many permutations to generate empirical probability distributions for evaluating model effects. Additionally, coefficients, statistics, fitted values, and residuals generated over many permutations can be used for various procedures including pairwise tests, prediction, classification, and model comparison. This package should provide most tools one could need for the analysis of high-dimensional data, especially in ecology and evolutionary biology, but certainly other fields, as well.
Maintained by Michael Collyer. Last updated 28 days ago.
4.0 match 4 stars 9.84 score 173 scripts 7 dependents
schochastics
networkdata:Repository of Network Datasets
The package contains a large collection of network dataset with different context. This includes social networks, animal networks and movie networks. All datasets are in 'igraph' format.
Maintained by David Schoch. Last updated 12 months ago.
7.8 match 143 stars 5.01 score 143 scripts
jclavel
mvMORPH:Multivariate Comparative Tools for Fitting Evolutionary Models to Morphometric Data
Fits multivariate (Brownian Motion, Early Burst, ACDC, Ornstein-Uhlenbeck and Shifts) models of continuous traits evolution on trees and time series. 'mvMORPH' also proposes high-dimensional multivariate comparative tools (linear models using Generalized Least Squares and multivariate tests) based on penalized likelihood. See Clavel et al. (2015) <DOI:10.1111/2041-210X.12420>, Clavel et al. (2019) <DOI:10.1093/sysbio/syy045>, and Clavel & Morlon (2020) <DOI:10.1093/sysbio/syaa010>.
Maintained by Julien Clavel. Last updated 1 months ago.
3.9 match 17 stars 9.46 score 189 scripts 3 dependents
kleinbub
rMEA:Synchrony in Motion Energy Analysis (MEA) Time-Series
A suite of tools useful to read, visualize and export bivariate motion energy time-series. Lagged synchrony between subjects can be analyzed through windowed cross-correlation. Surrogate data generation allows an estimation of pseudosynchrony that helps to estimate the effect size of the observed synchronization. Kleinbub, J. R., & Ramseyer, F. T. (2020). rMEA: An R package to assess nonverbal synchronization in motion energy analysis time-series. Psychotherapy research, 1-14. <doi:10.1080/10503307.2020.1844334>.
Maintained by Johann R. Kleinbub. Last updated 3 months ago.
7.1 match 15 stars 4.73 score 24 scripts
robjhyndman
fma:Data Sets from "Forecasting: Methods and Applications" by Makridakis, Wheelwright & Hyndman (1998)
All data sets from "Forecasting: methods and applications" by Makridakis, Wheelwright & Hyndman (Wiley, 3rd ed., 1998) <https://robjhyndman.com/forecasting/>.
Maintained by Rob Hyndman. Last updated 1 years ago.
3.6 match 19 stars 8.74 score 336 scripts 2 dependents
siacus
sde:Simulation and Inference for Stochastic Differential Equations
Companion package to the book Simulation and Inference for Stochastic Differential Equations With R Examples, ISBN 978-0-387-75838-1, Springer, NY. *
Maintained by Stefano Maria Iacus. Last updated 2 years ago.
4.5 match 7.02 score 178 scripts 15 dependents
caetanods
ratematrix:Bayesian Estimation of the Evolutionary Rate Matrix
The Evolutionary Rate Matrix is a variance-covariance matrix which describes both the rates of trait evolution and the evolutionary correlation among multiple traits. This package has functions to estimate these parameters using Bayesian MCMC. It is possible to test if the pattern of evolutionary correlations among traits has changed between predictive regimes painted along the branches of the phylogenetic tree. Regimes can be created a priori or estimated as part of the MCMC under a joint estimation approach. The package has functions to run MCMC chains, plot results, evaluate convergence, and summarize posterior distributions.
Maintained by Daniel Caetano. Last updated 2 years ago.
5.2 match 10 stars 5.91 score 18 scripts 1 dependents
zejiang-unsw
synthesis:Generate Synthetic Data from Statistical Models
Generate synthetic time series from commonly used statistical models, including linear, nonlinear and chaotic systems. Applications to testing methods can be found in Jiang, Z., Sharma, A., & Johnson, F. (2019) <doi:10.1016/j.advwatres.2019.103430> and Jiang, Z., Sharma, A., & Johnson, F. (2020) <doi:10.1029/2019WR026962> associated with an open-source tool by Jiang, Z., Rashid, M. M., Johnson, F., & Sharma, A. (2020) <doi:10.1016/j.envsoft.2020.104907>.
Maintained by Ze Jiang. Last updated 9 months ago.
6.6 match 3 stars 4.56 score 12 scripts
resplab
cumulcalib:Cumulative Calibration Assessment for Prediction Models
Tools for visualization of, and inference on, the calibration of prediction models on the cumulative domain. This provides a method for evaluating calibration of risk prediction models without having to group the data or use tuning parameters (e.g., loess bandwidth). This package implements the methodology described in Sadatsafavi and Patkau (2024) <doi:10.1002/sim.10138>. The core of the package is cumulcalib(), which takes in vectors of binary responses and predicted risks. The plot() and summary() methods are implemented for the results returned by cumulcalib().
Maintained by Mohsen Sadatsafavi. Last updated 9 months ago.
6.5 match 2 stars 4.60 score 8 scripts
cran
mvSLOUCH:Multivariate Stochastic Linear Ornstein-Uhlenbeck Models for Phylogenetic Comparative Hypotheses
Fits multivariate Ornstein-Uhlenbeck types of models to continues trait data from species related by a common evolutionary history. See K. Bartoszek, J, Pienaar, P. Mostad, S. Andersson, T. F. Hansen (2012) <doi:10.1016/j.jtbi.2012.08.005>. The suggested PCMBaseCpp package (which significantly speeds up the likelihood calculations) can be obtained from <https://github.com/venelin/PCMBaseCpp/>.
Maintained by Krzysztof Bartoszek. Last updated 1 years ago.
8.6 match 3.00 score 1 dependents
achetverikov
circhelp:Circular Analyses Helper Functions
Light-weight functions for computing descriptive statistics in different circular spaces (e.g., 2pi, 180, or 360 degrees), to handle angle-dependent biases, pad circular data, and more. Specifically aimed for psychologists and neuroscientists analyzing circular data. Basic methods are based on Jammalamadaka and SenGupta (2001) <doi:10.1142/4031>, removal of cardinal biases is based on the approach introduced in van Bergen, Ma, Pratte, & Jehee (2015) <doi:10.1038/nn.4150> and Chetverikov and Jehee (2023) <doi:10.1038/s41467-023-43251-w>.
Maintained by Andrey Chetverikov. Last updated 6 months ago.
5.4 match 1 stars 4.78 score 6 scriptsspsanderson
RandomWalker:Generate Random Walks Compatible with the 'tidyverse'
Generates random walks of various types by providing a set of functions that are compatible with the 'tidyverse'. The functions provided in the package make it simple to create random walks with a variety of properties, such as how many simulations to run, how many steps to take, and the distribution of random walk itself.
Maintained by Steven Sanderson. Last updated 1 months ago.
random-walkrandom-walksrpackages
4.3 match 5 stars 6.05 score 5 scripts 1 dependents
acguidoum
Sim.DiffProc:Simulation of Diffusion Processes
It provides users with a wide range of tools to simulate, estimate, analyze, and visualize the dynamics of stochastic differential systems in both forms Ito and Stratonovich. Statistical analysis with parallel Monte Carlo and moment equations methods of SDEs <doi:10.18637/jss.v096.i02>. Enabled many searchers in different domains to use these equations to modeling practical problems in financial and actuarial modeling and other areas of application, e.g., modeling and simulate of first passage time problem in shallow water using the attractive center (Boukhetala K, 1996) ISBN:1-56252-342-2.
Maintained by Arsalane Chouaib Guidoum. Last updated 1 years ago.
dynamic-systemmoment-equationsmonte-carlo-simulationparallel-computingstochastic-calculusstochastic-differential-equationtransition-density
3.3 match 13 stars 7.69 score 86 scripts 4 dependents
jbkunst
highcharter:A Wrapper for the 'Highcharts' Library
A wrapper for the 'Highcharts' library including shortcut functions to plot R objects. 'Highcharts' <https://www.highcharts.com/> is a charting library offering numerous chart types with a simple configuration syntax.
Maintained by Joshua Kunst. Last updated 1 years ago.
highchartshtmlwidgetsshinyshiny-rvisualizationwrapper
1.8 match 725 stars 13.93 score 4.9k scripts 18 dependentsropensci
landscapetools:Landscape Utility Toolbox
Provides utility functions for some of the less-glamorous tasks involved in landscape analysis. It includes functions to coerce raster data to the common tibble format and vice versa, it helps with flexible reclassification tasks of raster data and it provides a function to merge multiple raster. Furthermore, 'landscapetools' helps landscape scientists to visualize their data by providing optional themes and utility functions to plot single landscapes, rasterstacks, -bricks and lists of raster.
Maintained by Marco Sciaini. Last updated 2 years ago.
landscapelandscape-ecologyrastervisualizationworkflow
3.6 match 46 stars 6.60 score 191 scripts
jimmcl
trajr:Animal Trajectory Analysis
A toolbox to assist with statistical analysis of animal trajectories. It provides simple access to algorithms for calculating and assessing a variety of characteristics such as speed and acceleration, as well as multiple measures of straightness or tortuosity. Some support is provided for 3-dimensional trajectories. McLean & Skowron Volponi (2018) <doi:10.1111/eth.12739>.
Maintained by Jim McLean. Last updated 8 months ago.
3.0 match 27 stars 7.69 score 151 scripts
r-forge
Sleuth3:Data Sets from Ramsey and Schafer's "Statistical Sleuth (3rd Ed)"
Data sets from Ramsey, F.L. and Schafer, D.W. (2013), "The Statistical Sleuth: A Course in Methods of Data Analysis (3rd ed)", Cengage Learning.
Maintained by Berwin A Turlach. Last updated 1 years ago.
3.6 match 6.38 score 522 scriptsr-forge
Sleuth2:Data Sets from Ramsey and Schafer's "Statistical Sleuth (2nd Ed)"
Data sets from Ramsey, F.L. and Schafer, D.W. (2002), "The Statistical Sleuth: A Course in Methods of Data Analysis (2nd ed)", Duxbury.
Maintained by Berwin A Turlach. Last updated 1 years ago.
3.6 match 5.70 score 191 scripts
otryakhin-dmitry
rlfsm:Simulations and Statistical Inference for Linear Fractional Stable Motions
Contains functions for simulating the linear fractional stable motion according to the algorithm developed by Mazur and Otryakhin <doi:10.32614/RJ-2020-008> based on the method from Stoev and Taqqu (2004) <doi:10.1142/S0218348X04002379>, as well as functions for estimation of parameters of these processes introduced by Mazur, Otryakhin and Podolskij (2018) <arXiv:1802.06373>, and also different related quantities.
Maintained by Dmitry Otryakhin. Last updated 3 years ago.
6.8 match 3.00 score 20 scripts
geomorphr
geomorph:Geometric Morphometric Analyses of 2D and 3D Landmark Data
Read, manipulate, and digitize landmark data, generate shape variables via Procrustes analysis for points, curves and surfaces, perform shape analyses, and provide graphical depictions of shapes and patterns of shape variation.
Maintained by Dean Adams. Last updated 1 months ago.
1.7 match 76 stars 12.05 score 700 scripts 6 dependents
ostirrup
covBM:Brownian Motion Processes for 'nlme'-Models
Allows Brownian motion, fractional Brownian motion, and integrated Ornstein-Uhlenbeck process components to be added to linear and non-linear mixed effects models using the structures and methods of the 'nlme' package.
Maintained by Oliver Stirrup. Last updated 9 years ago.
6.6 match 3.00 score 10 scripts
puttickmacroevolution
motmot:Models of Trait Macroevolution on Trees
Functions for fitting models of trait evolution on phylogenies for continuous traits. The majority of functions described in Thomas and Freckleton (2012) <doi:10.1111/j.2041-210X.2011.00132.x> and include functions that allow for tests of variation in the rates of trait evolution.
Maintained by Mark Puttick. Last updated 5 years ago.
3.0 match 4 stars 6.05 score 35 scripts
thomasp85
ggfx:Pixel Filters for 'ggplot2' and 'grid'
Provides a range of filters that can be applied to layers from the 'ggplot2' package and its extensions, along with other graphic elements such as guides and theme elements. The filters are applied at render time and thus uses the exact pixel dimensions needed.
Maintained by Thomas Lin Pedersen. Last updated 3 years ago.
1.9 match 170 stars 9.10 score 452 scripts 3 dependents
mlysy
SuperGauss:Superfast Likelihood Inference for Stationary Gaussian Time Series
Likelihood evaluations for stationary Gaussian time series are typically obtained via the Durbin-Levinson algorithm, which scales as O(n^2) in the number of time series observations. This package provides a "superfast" O(n log^2 n) algorithm written in C++, crossing over with Durbin-Levinson around n = 300. Efficient implementations of the score and Hessian functions are also provided, leading to superfast versions of inference algorithms such as Newton-Raphson and Hamiltonian Monte Carlo. The C++ code provides a Toeplitz matrix class packaged as a header-only library, to simplify low-level usage in other packages and outside of R.
Maintained by Martin Lysy. Last updated 1 months ago.
3.0 match 2 stars 5.60 score 33 scripts 2 dependents
kopperud
slouch:Stochastic Linear Ornstein-Uhlenbeck Comparative Hypotheses
An implementation of a phylogenetic comparative method. It can fit univariate among-species Ornstein-Uhlenbeck models of phenotypic trait evolution, where the trait evolves towards a primary optimum. The optimum can be modelled as a single parameter, as multiple discrete regimes on the phylogenetic tree, and/or with continuous covariates. See also Hansen (1997) <doi:10.2307/2411186>, Butler & King (2004) <doi:10.1086/426002>, Hansen et al. (2008) <doi:10.1111/j.1558-5646.2008.00412.x>.
Maintained by Bjørn Tore Kopperud. Last updated 1 years ago.
3.2 match 2 stars 5.12 score 44 scripts 1 dependents
muschellij2
fslr:Wrapper Functions for 'FSL' ('FMRIB' Software Library) from Functional MRI of the Brain ('FMRIB')
Wrapper functions that interface with 'FSL' <http://fsl.fmrib.ox.ac.uk/fsl/fslwiki/>, a powerful and commonly-used 'neuroimaging' software, using system commands. The goal is to be able to interface with 'FSL' completely in R, where you pass R objects of class 'nifti', implemented by package 'oro.nifti', and the function executes an 'FSL' command and returns an R object of class 'nifti' if desired.
Maintained by John Muschelli. Last updated 1 months ago.
fslfslrneuroimagingneuroimaging-analysisneuroimaging-data-science
2.0 match 41 stars 8.01 score 420 scriptsthomasp85
ambient:A Generator of Multidimensional Noise
Generation of natural looking noise has many application within simulation, procedural generation, and art, to name a few. The 'ambient' package provides an interface to the 'FastNoise' C++ library and allows for efficient generation of perlin, simplex, worley, cubic, value, and white noise with optional perturbation in either 2, 3, or 4 (in case of simplex and white noise) dimensions.
Maintained by Thomas Lin Pedersen. Last updated 3 years ago.
1.9 match 97 stars 8.09 score 956 scripts 2 dependentsbart1
move2:Processing and Analysing Animal Trajectories
Tools to handle, manipulate and explore trajectory data, with an emphasis on data from tracked animals. The package is designed to support large studies with several million location records and keep track of units where possible. Data import directly from 'movebank' <https://www.movebank.org/cms/movebank-main> and files is facilitated.
Maintained by Bart Kranstauber. Last updated 1 months ago.
2.0 match 7.51 score 169 scripts 1 dependents
ropengov
hansard:Provides Easy Downloading Capabilities for the UK Parliament API
Provides functions to download data from the <https://explore.data.parliament.uk/> APIs. Because of the structure of the API, there is a named function for each type of available data for ease of use, as well as some functions designed to retrieve specific pieces of commonly used data. Functions for each new API will be added as and when they become available.
Maintained by Evan Odell. Last updated 2 years ago.
5.5 match 1 stars 2.70 score
richfitz
diversitree:Comparative 'Phylogenetic' Analyses of Diversification
Contains a number of comparative 'phylogenetic' methods, mostly focusing on analysing diversification and character evolution. Contains implementations of 'BiSSE' (Binary State 'Speciation' and Extinction) and its unresolved tree extensions, 'MuSSE' (Multiple State 'Speciation' and Extinction), 'QuaSSE', 'GeoSSE', and 'BiSSE-ness' Other included methods include Markov models of discrete and continuous trait evolution and constant rate 'speciation' and extinction.
Maintained by Richard G. FitzJohn. Last updated 6 months ago.
1.8 match 33 stars 8.50 score 524 scripts 4 dependents
pasraia
RRphylo:Phylogenetic Ridge Regression Methods for Comparative Studies
Functions for phylogenetic analysis (Castiglione et al., 2018 <doi:10.1111/2041-210X.12954>). The functions perform the estimation of phenotypic evolutionary rates, identification of phenotypic evolutionary rate shifts, quantification of direction and size of evolutionary change in multivariate traits, the computation of ontogenetic shape vectors and test for morphological convergence.
Maintained by Silvia Castiglione. Last updated 17 hours ago.
1.9 match 10 stars 7.78 score 83 scriptsmuschellij2
freesurfer:Wrapper Functions for 'Freesurfer'
Wrapper functions that interface with 'Freesurfer' <https://surfer.nmr.mgh.harvard.edu/>, a powerful and commonly-used 'neuroimaging' software, using system commands. The goal is to be able to interface with 'Freesurfer' completely in R, where you pass R objects of class 'nifti', implemented by package 'oro.nifti', and the function executes an 'Freesurfer' command and returns an R object of class 'nifti' or necessary output.
Maintained by John Muschelli. Last updated 3 months ago.
1.8 match 10 stars 7.69 score 55 scripts 1 dependents
fmichonneau
phylobase:Base Package for Phylogenetic Structures and Comparative Data
Provides a base S4 class for comparative methods, incorporating one or more trees and trait data.
Maintained by Francois Michonneau. Last updated 1 years ago.
1.2 match 18 stars 11.14 score 394 scripts 18 dependents
lukejharmon
geiger:Analysis of Evolutionary Diversification
Methods for fitting macroevolutionary models to phylogenetic trees Pennell (2014) <doi:10.1093/bioinformatics/btu181>.
Maintained by Luke Harmon. Last updated 2 years ago.
1.7 match 1 stars 7.84 score 2.3k scripts 28 dependents
matrix-profile-foundation
tsmp:Time Series with Matrix Profile
A toolkit implementing the Matrix Profile concept that was created by CS-UCR <http://www.cs.ucr.edu/~eamonn/MatrixProfile.html>.
Maintained by Francisco Bischoff. Last updated 3 years ago.
algorithmmatrix-profilemotif-searchtime-seriescpp
1.8 match 72 stars 7.29 score 179 scripts 1 dependents
maciekbanas
shinyTimer:Customizable Timer for 'shiny' Applications
Provides a customizable timer widget for 'shiny' applications. Key features include countdown and count-up mode, multiple display formats (including simple seconds, minutes-seconds, hours-minutes-seconds, and minutes-seconds-centiseconds), ability to pause, resume, and reset the timer. 'shinytimer' widget can be particularly useful for creating interactive and time-sensitive applications, tracking session times, setting time limits for tasks or quizzes, and more.
Maintained by Maciej Banas. Last updated 11 days ago.
3.8 match 3.30 score
yuimaproject
yuima:The YUIMA Project Package for SDEs
Simulation and Inference for SDEs and Other Stochastic Processes.
Maintained by Stefano M. Iacus. Last updated 4 days ago.
1.7 match 9 stars 7.26 score 92 scripts 2 dependentscran
ChestVolume:Estimate the Chest Volume with Markers Data
Provides tools to process and analyze chest expansion using 3D marker data from motion capture systems. Includes functions for data processing, marker position adjustment, volume calculation using convex hulls, and visualization in 2D and 3D. Barber et al. (1996) <doi:10.1145/235815.235821>. TAMIYA Hiroyuki et al. (2021) <doi:10.1038/s41598-021-01033-8>.
Maintained by Wai-Hang Kwong. Last updated 2 months ago.
3.9 match 3.00 score 4 scripts
ghbolstad
evolvability:Calculation of Evolvability Parameters
Provides tools for calculating evolvability parameters from estimated G-matrices as defined in Hansen and Houle (2008) <doi:10.1111/j.1420-9101.2008.01573.x> and fits phylogenetic comparative models that link the rate of evolution of a trait to the state of another evolving trait (see Hansen et al. 2021 Systematic Biology <doi:10.1093/sysbio/syab079>). The package was released with Bolstad et al. (2014) <doi:10.1098/rstb.2013.0255>, which contains some examples of use.
Maintained by Geir H. Bolstad. Last updated 10 months ago.
2.6 match 4.20 score 16 scripts
taikisan21
PamBinaries:Read and Process 'Pamguard' Binary Data
Functions for easily reading and processing binary data files created by 'Pamguard' (<https://www.pamguard.org/>). All functions for directly reading the binary data files are based on 'MATLAB' code written by Michael Oswald.
Maintained by Taiki Sakai. Last updated 2 months ago.
1.9 match 10 stars 5.39 score 18 scripts 3 dependents
dipterix
rpyANTs:An Alternative Advanced Normalization Tools ('ANTs')
Provides portable access from 'R' to biomedical image processing toolbox 'ANTs' by Avants et al. (2009) <doi:10.54294/uvnhin> via seamless integration with the 'Python' implementation 'ANTsPy'. Allows biomedical images to be processed in 'Python' and analyzed in 'R', and vice versa via shared memory. See 'citation("rpyANTs")' for more reference information.
Maintained by Zhengjia Wang. Last updated 1 months ago.
antsbrainieegmrineuroimagingnormalizationpythonregistration
2.3 match 1 stars 4.43 score 8 scripts 2 dependents
statismike
shiny.reglog:Optional Login and Registration Module System for ShinyApps
RegLog system provides a set of shiny modules to handle register procedure for your users, alongside with login, edit credentials and password reset functionality. It provides support for popular SQL databases and optionally googlesheet-based database for easy setup. For email sending it provides support for 'emayili' and 'gmailr' backends. Architecture makes customizing usability pretty straightforward. The authentication system created with shiny.reglog is designed to be optional: user don't need to be logged-in to access your application, but when logged-in the user data can be used to read from and write to relational databases.
Maintained by Michal Kosinski. Last updated 3 years ago.
googlesheetregister-uishiny-applicationssqlite
1.5 match 14 stars 6.45 score 20 scripts
radekhalfar
dydea:Detection of Chaotic and Regular Intervals in the Data
Finds regular and chaotic intervals in the data using the 0-1 test for chaos proposed by Gottwald and Melbourne (2004) <DOI:10.1137/080718851>.
Maintained by Radek Halfar. Last updated 6 years ago.
5.5 match 1.70 score
rdinnager
fibre:Fast Evolutionary Trait Modelling on Phylogenies using Branch Regression Models
Implements Phylogenetic Branch Regression models which allow for flexible and versatile models of evolution along a phylogeny. The model can be used to detect shifts in rates of evolution along branches. The model uses a continuous and linear model structure and so can be easily combined with other non-phylogenetic statistical structures, as long as they are implemented using the R package INLA. One major uses of this are to condition on phylogeny in a standard regression between two traits, thus 'accounting' for phylogenetic structure in the response variable, similar to how pgls is used but allowing for a more flexible phylogenetic model. This also allows the phylogenetic model to be combined with the spatial models that INLA excels at (and with comparable flexibility to those spatial models).
Maintained by Russell Dinnage. Last updated 3 months ago.
3.3 match 3 stars 2.71 score 34 scripts
hckiang
glinvci:Phylogenetic Comparative Methods with Uncertainty Estimates
A framework for analytically computing the asymptotic confidence intervals and maximum-likelihood estimates of a class of continuous-time Gaussian branching processes defined by Mitov V, Bartoszek K, Asimomitis G, Stadler T (2019) <doi:10.1016/j.tpb.2019.11.005>. The class of model includes the widely used Ornstein-Uhlenbeck and Brownian motion branching processes. The framework is designed to be flexible enough so that the users can easily specify their own sub-models, or re-parameterizations, and obtain the maximum-likelihood estimates and confidence intervals of their own custom models.
Maintained by Woodrow Kiang. Last updated 11 months ago.
2.2 match 4.00 score 5 scripts
bczernecki
thunder:Computation and Visualisation of Atmospheric Convective Parameters
Allow to compute and visualise convective parameters commonly used in the operational prediction of severe convective storms. Core algorithm is based on a highly optimized 'C++' code linked into 'R' via 'Rcpp'. Highly efficient engine allows to derive thermodynamic and kinematic parameters from large numerical datasets such as reanalyses or operational Numerical Weather Prediction models in a reasonable amount of time. Package has been developed since 2017 by research meteorologists specializing in severe thunderstorms. The most relevant methods used in the package based on the following publications Stipanuk (1973) <https://apps.dtic.mil/sti/pdfs/AD0769739.pdf>, McCann et al. (1994) <doi:10.1175/1520-0434(1994)009%3C0532:WNIFFM%3E2.0.CO;2>, Bunkers et al. (2000) <doi:10.1175/1520-0434(2000)015%3C0061:PSMUAN%3E2.0.CO;2>, Corfidi et al. (2003) <doi:10.1175/1520-0434(2003)018%3C0997:CPAMPF%3E2.0.CO;2>, Showalter (1953) <doi:10.1175/1520-0477-34.6.250>, Coffer et al. (2019) <doi:10.1175/WAF-D-19-0115.1>, Gropp and Davenport (2019) <doi:10.1175/WAF-D-17-0150.1>, Czernecki et al. (2019) <doi:10.1016/j.atmosres.2019.05.010>, Taszarek et al. (2020) <doi:10.1175/JCLI-D-20-0346.1>, Sherburn and Parker (2014) <doi:10.1175/WAF-D-13-00041.1>, Romanic et al. (2022) <doi:10.1016/j.wace.2022.100474>.
Maintained by Bartosz Czernecki. Last updated 12 months ago.
capecinconvective-parametersdownload-soundinghodographrawinsondesevere-weatherthundertornadocpp
1.3 match 45 stars 6.31 score 7 scripts
mariushofert
qrmtools:Tools for Quantitative Risk Management
Functions and data sets for reproducing selected results from the book "Quantitative Risk Management: Concepts, Techniques and Tools". Furthermore, new developments and auxiliary functions for Quantitative Risk Management practice.
Maintained by Marius Hofert. Last updated 1 years ago.
2.0 match 2 stars 4.15 score 237 scripts
coffeemuggler
eseis:Environmental Seismology Toolbox
Environmental seismology is a scientific field that studies the seismic signals, emitted by Earth surface processes. This package provides all relevant functions to read/write seismic data files, prepare, analyse and visualise seismic data, and generate reports of the processing history.
Maintained by Michael Dietze. Last updated 4 months ago.
1.9 match 9 stars 4.42 score 58 scripts
ktabelow
qMRI:Methods for Quantitative Magnetic Resonance Imaging ('qMRI')
Implementation of methods for estimation of quantitative maps from Multi-Parameter Mapping (MPM) acquisitions (Weiskopf et al. (2013) <doi:10.3389/fnins.2013.00095>) and analysis of Inversion Recovery MRI data. Usage of the package is described in Polzehl and Tabelow (2023), "Magnetic Resonance Brain Imaging", 2nd Edition, Chapter 6 and 7, Springer, Use R! Series. <doi:10.1007/978-3-031-38949-8>. J. Polzehl and K. Tabelow (2023), "Magnetic Resonance Brain Imaging - Modeling and Data Analysis Using R: Code and Data." <doi:10.20347/WIAS.DATA.6> provides extensive example code and data.
Maintained by Karsten Tabelow. Last updated 12 days ago.
1.7 match 4.81 score 36 scripts
rethomics
sleepr:Analyse Activity and Sleep Behaviour
Use behavioural variables to score activity and infer sleep from bouts of immobility. It is primarily designed to score sleep in fruit flies from Drosophila Activity Monitor (TriKinetics) and Ethoscope data. It implements sleep scoring using the "five-minute rule" (Hendricks et al. (2000) <DOI:10.1016/S0896-6273(00)80877-6>), activity classification for Ethoscopes (Geissmann et al. (2017) <DOI:10.1371/journal.pbio.2003026>) and a new algorithm to detect when animals are dead.
Maintained by Quentin Geissmann. Last updated 3 years ago.
biological-data-analysisneuroscience
1.9 match 6 stars 4.27 score 62 scripts
shotaochi
magickGUI:GUI Tools for Interactive Image Processing with 'magick'
Enables us to use the functions of the package 'magick' interactively.
Maintained by Shota Ochi. Last updated 2 years ago.
2.0 match 9 stars 3.83 score 15 scripts
thej022214
OUwie:Analysis of Evolutionary Rates in an OU Framework
Estimates rates for continuous character evolution under Brownian motion and a new set of Ornstein-Uhlenbeck based Hansen models that allow both the strength of the pull and stochastic motion to vary across selective regimes. Beaulieu et al (2012).
Maintained by Jeremy Beaulieu. Last updated 1 months ago.
0.8 match 9 stars 8.37 score 161 scripts
mhealthgroup
MIMSunit:Algorithm to Compute Monitor Independent Movement Summary Unit (MIMS-Unit)
The MIMS-unit algorithm is developed to compute Monitor Independent Movement Summary Unit, a measurement to summarize raw accelerometer data while ensuring harmonized results across different devices. It also includes scripts to reproduce results in the related publication (John, D., Tang. Q., Albinali, F. and Intille, S. (2019) <doi:10.1123/jmpb.2018-0068>).
Maintained by Qu Tang. Last updated 3 years ago.
1.7 match 12 stars 3.98 score 16 scripts
gmestrem
fdaACF:Autocorrelation Function for Functional Time Series
Quantify the serial correlation across lags of a given functional time series using the autocorrelation function and a partial autocorrelation function for functional time series proposed in Mestre et al. (2021) <doi:10.1016/j.csda.2020.107108>. The autocorrelation functions are based on the L2 norm of the lagged covariance operators of the series. Functions are available for estimating the distribution of the autocorrelation functions under the assumption of strong functional white noise.
Maintained by Guillermo Mestre Marcos. Last updated 4 years ago.
1.8 match 8 stars 3.64 score 11 scriptsrdinnager
phyf:Phylogenetic Flow Objects for Easy Manipulation and Modelling of Data on Phylogenetic Trees and Graphs
The {phyf} package implements a tibble and vctrs based object for storing phylogenetic trees along with data. It is fast and flexible and directly produces data structures useful for phylogenetic modelling in the {fibre} package.
Maintained by Russell Dinnage. Last updated 7 months ago.
1.6 match 1 stars 4.20 score 53 scripts 1 dependents
kjetil1001
SenSrivastava:Datasets from Sen & Srivastava
Collection of datasets from Sen & Srivastava: "Regression Analysis, Theory, Methods and Applications", Springer. Sources for individual data files are more fully documented in the book.
Maintained by Kjetil B Halvorsen. Last updated 1 years ago.
3.5 match 1.76 score 57 scripts
funwithr
LongMemoryTS:Long Memory Time Series
Long Memory Time Series is a collection of functions for estimation, simulation and testing of long memory processes, spurious long memory processes and fractionally cointegrated systems.
Maintained by Christian Leschinski. Last updated 6 years ago.
1.8 match 2 stars 3.40 score 42 scripts 1 dependents
kzychaluk
modelfree:Model-Free Estimation of a Psychometric Function
Local linear estimation of psychometric functions. Provides functions for nonparametric estimation of a psychometric function and for estimation of a derived threshold and slope, and their standard deviations and confidence intervals.
Maintained by Kamila Zychaluk. Last updated 2 years ago.
3.8 match 1.58 score 38 scripts
alexjcwitsil
imagefx:Extract Features from Images
Synthesize images into characteristic features for time-series analysis or machine learning applications. The package was originally intended for monitoring volcanic eruptions in video data by highlighting and extracting regions above the vent associated with plume activity. However, the functions within are general and have wide applications for image processing, analyzing, filtering, and plotting.
Maintained by Alex J.C. Witsil. Last updated 5 years ago.
2.4 match 2.34 score 11 scripts
tuomaseerola
movementsync:Analysis and Visualisation of Musical Audio and Video Movement Synchrony Data
Analysis and visualisation of synchrony, interaction, and joint movements from audio and video movement data of a group of music performers. The demo is data described in Clayton, Leante, and Tarsitani (2021) <doi:10.17605/OSF.IO/KS325>, while example analyses can be found in Clayton, Jakubowski, and Eerola (2019) <doi:10.1177/1029864919844809>. Additionally, wavelet analysis techniques have been applied to examine movement-related musical interactions, as shown in Eerola et al. (2018) <doi:10.1098/rsos.171520>.
Maintained by Tuomas Eerola. Last updated 1 years ago.
1.9 match 1 stars 2.85 score 14 scripts
tomaspinall
FKF.SP:Fast Kalman Filtering Through Sequential Processing
Fast and flexible Kalman filtering and smoothing implementation utilizing sequential processing, designed for efficient parameter estimation through maximum likelihood estimation. Sequential processing is a univariate treatment of a multivariate series of observations and can benefit from computational efficiency over traditional Kalman filtering when independence is assumed in the variance of the disturbances of the measurement equation. Sequential processing is described in the textbook of Durbin and Koopman (2001, ISBN:978-0-19-964117-8). 'FKF.SP' was built upon the existing 'FKF' package and is, in general, a faster Kalman filter/smoother.
Maintained by Thomas Aspinall. Last updated 5 months ago.
kalman-filterkalman-filteringmaximum-likelihood-estimationsequential-processingtime-series-analysisopenblas
1.1 match 2 stars 4.78 score 3 scripts 1 dependents
kevinarbuckle
windex:Analysing Convergent Evolution using the Wheatsheaf Index
Analysing convergent evolution using the Wheatsheaf index, described in Arbuckle et al. (2014) <doi: 10.1111/2041-210X.12195>, and some other unrelated but perhaps useful functions.
Maintained by Kevin Arbuckle. Last updated 1 months ago.
1.7 match 2.90 score 8 scripts
ateshkoul
PredPsych:Predictive Approaches in Psychology
Recent years have seen an increased interest in novel methods for analyzing quantitative data from experimental psychology. Currently, however, they lack an established and accessible software framework. Many existing implementations provide no guidelines, consisting of small code snippets, or sets of packages. In addition, the use of existing packages often requires advanced programming experience. 'PredPsych' is a user-friendly toolbox based on machine learning predictive algorithms. It comprises of multiple functionalities for multivariate analyses of quantitative behavioral data based on machine learning models.
Maintained by Atesh Koul. Last updated 6 years ago.
3.1 match 1.60 score 9 scriptscran
wwntests:Hypothesis Tests for Functional Time Series
Provides a collection of white noise hypothesis tests for functional time series and related visualizations. These include tests based on the norms of autocovariance operators that are built under both strong and weak white noise assumptions. Additionally, tests based on the spectral density operator and on principal component dimensional reduction are included, which are built under strong white noise assumptions. Also, this package provides goodness-of-fit tests for functional autoregressive of order 1 models. These methods are described in Kokoszka et al. (2017) <doi:10.1016/j.jmva.2017.08.004>, Characiejus and Rice (2019) <doi:10.1016/j.ecosta.2019.01.003>, Gabrys and Kokoszka (2007) <doi:10.1198/016214507000001111>, and Kim et al. (2023) <doi: 10.1214/23-SS143> respectively.
Maintained by Mihyun Kim. Last updated 1 years ago.
1.6 match 2 stars 2.30 score 3 scripts
pbastide
PhylogeneticEM:Automatic Shift Detection using a Phylogenetic EM
Implementation of the automatic shift detection method for Brownian Motion (BM) or Ornstein–Uhlenbeck (OU) models of trait evolution on phylogenies. Some tools to handle equivalent shifts configurations are also available. See Bastide et al. (2017) <doi:10.1111/rssb.12206> and Bastide et al. (2018) <doi:10.1093/sysbio/syy005>.
Maintained by Paul Bastide. Last updated 1 months ago.
0.5 match 16 stars 6.96 score 47 scripts
ericgoolsby
Rphylopars:Phylogenetic Comparative Tools for Missing Data and Within-Species Variation
Tools for performing phylogenetic comparative methods for datasets with with multiple observations per species (intraspecific variation or measurement error) and/or missing data (Goolsby et al. 2017). Performs ancestral state reconstruction and missing data imputation on the estimated evolutionary model, which can be specified as Brownian Motion, Ornstein-Uhlenbeck, Early-Burst, Pagel's lambda, kappa, or delta, or a star phylogeny.
Maintained by Eric W. Goolsby. Last updated 3 years ago.
0.5 match 31 stars 6.35 score 73 scriptscran
LSMonteCarlo:American options pricing with Least Squares Monte Carlo method
The package compiles functions for calculating prices of American put options with Least Squares Monte Carlo method. The option types are plain vanilla American put, Asian American put, and Quanto American put. The pricing algorithms include variance reduction techniques such as Antithetic Variates and Control Variates. Additional functions are given to derive "price surfaces" at different volatilities and strikes, create 3-D plots, quickly generate Geometric Brownian motion, and calculate prices of European options with Black & Scholes analytical solution.
Maintained by Mikhail A. Beketov. Last updated 11 years ago.
2.4 match 1 stars 1.00 score
mandymejia
fMRIscrub:Scrubbing and Other Data Cleaning Routines for fMRI
Data-driven fMRI denoising with projection scrubbing (Pham et al (2022) <doi:10.1016/j.neuroimage.2023.119972>). Also includes routines for DVARS (Derivatives VARianceS) (Afyouni and Nichols (2018) <doi:10.1016/j.neuroimage.2017.12.098>), motion scrubbing (Power et al (2012) <doi:10.1016/j.neuroimage.2011.10.018>), aCompCor (anatomical Components Correction) (Muschelli et al (2014) <doi:10.1016/j.neuroimage.2014.03.028>), detrending, and nuisance regression. Projection scrubbing is also applicable to other outlier detection tasks involving high-dimensional data.
Maintained by Amanda Mejia. Last updated 2 years ago.
0.5 match 4 stars 4.56 score 15 scripts 1 dependents
cspun
STFTS:Statistical Tests for Functional Time Series
A collection of statistical hypothesis tests of functional time series. While it will include more tests when the related literature are enriched, this package contains the following key tests: functional stationarity test, functional trend stationarity test, functional unit root test, to name a few.
Maintained by Chi Seng Pun. Last updated 4 years ago.
1.9 match 1.00 score 1 scripts
themisefth
duet:Analysing Non-Verbal Communication in Dyadic Interactions from Video Data
Analyzes non-verbal communication by processing data extracted from video recordings of dyadic interactions. It supports integration with open source tools, currently limited to 'OpenPose' (Cao et al. (2019) <doi:10.1109/TPAMI.2019.2929257>), converting its outputs into CSV format for further analysis. The package includes functions for data pre-processing, visualization, and computation of motion indices such as velocity, acceleration, and jerkiness (Cook et al. (2013) <doi:10.1093/brain/awt208>), facilitating the analysis of non-verbal cues in paired interactions and contributing to research on human communication dynamics.
Maintained by Themis Efthimiou. Last updated 21 days ago.
0.5 match 3.40 score
burgerga
mdftracks:Read and Write 'MTrackJ Data Files'
'MTrackJ' is an 'ImageJ' plugin for motion tracking and analysis (see <https://imagescience.org/meijering/software/mtrackj/>). This package reads and writes 'MTrackJ Data Files' ('.mdf', see <https://imagescience.org/meijering/software/mtrackj/format/>). It supports 2D data and read/writes cluster, point, and channel information. If desired, generates track identifiers that are unique over the clusters. See the project page for more information and examples.
Maintained by Gerhard Burger. Last updated 1 years ago.
0.5 match 1 stars 2.78 score 12 scripts
arindamroychoudhury
rapidphylo:Rapidly Estimates Phylogeny from Large Allele Frequency Data Using Root Distances Method
Rapidly estimates tree-topology from large allele frequency data using Root Distances Method, under a Brownian Motion Model. See Peng et al. (2021) <doi:10.1016/j.ympev.2021.107142>.
Maintained by Arindam RoyChoudhury. Last updated 2 years ago.
0.5 match 2.70 score
ecor
boussinesq:Analytic Solutions for (Ground-Water) Boussinesq Equation
A collection of R functions were implemented from published and available analytic solutions for the One-Dimensional Boussinesq Equation (ground-water). In particular, the function "beq.lin()" is the analytic solution of the linearized form of Boussinesq Equation between two different head-based boundary (Dirichlet) conditions; "beq.song" is the non-linear power-series analytic solution of the motion of a wetting front over a dry bedrock (Song at al, 2007, see complete reference on function documentation). Bugs/comments/questions/collaboration of any kind are warmly welcomed.
Maintained by Emanuele Cordano. Last updated 2 years ago.
0.5 match 2.70 score 4 scripts
obreschkow
nbody:Gravitational N-Body Simulation
Run simple direct gravitational N-body simulations. The package can access different external N-body simulators (e.g. GADGET-4 by Springel et al. (2021) <doi:10.48550/arXiv.2010.03567>), but also has a simple built-in simulator. This default simulator uses a variable block time step and lets the user choose between a range of integrators, including 4th and 6th order integrators for high-accuracy simulations. Basic top-hat smoothing is available as an option. The code also allows the definition of background particles that are fixed or in uniform motion, not subject to acceleration by other particles.
Maintained by Danail Obreschkow. Last updated 5 months ago.
0.5 match 2.48 score 1 scripts
jsandube
DChaos:Chaotic Time Series Analysis
Chaos theory has been hailed as a revolution of thoughts and attracting ever increasing attention of many scientists from diverse disciplines. Chaotic systems are nonlinear deterministic dynamic systems which can behave like an erratic and apparently random motion. A relevant field inside chaos theory and nonlinear time series analysis is the detection of a chaotic behaviour from empirical time series data. One of the main features of chaos is the well known initial value sensitivity property. Methods and techniques related to test the hypothesis of chaos try to quantify the initial value sensitive property estimating the Lyapunov exponents. The DChaos package provides different useful tools and efficient algorithms which test robustly the hypothesis of chaos based on the Lyapunov exponent in order to know if the data generating process behind time series behave chaotically or not.
Maintained by Julio E. Sandubete. Last updated 2 years ago.
0.5 match 1 stars 2.00 score 9 scriptscran
ChernoffDist:Chernoff's Distribution
Computes Chernoff's distribution based on the method in Piet Groeneboom & Jon A Wellner (2001) Computing Chernoff's Distribution, Journal of Computational and Graphical Statistics, 10:2, 388-400, <doi:10.1198/10618600152627997>. Chernoff's distribution is defined as the distribution of the maximizer of the two-sided Brownian motion minus quadratic drift. That is, Z = argmax (B(t)-t^2).
Maintained by Haitian Xie. Last updated 2 years ago.
0.5 match 1.78 score 6 scripts 2 dependents
baumgrt
sdprisk:Measures of Risk for the Compound Poisson Risk Process with Diffusion
Based on the compound Poisson risk process that is perturbed by a Brownian motion, saddlepoint approximations to some measures of risk are provided. Various approximation methods for the probability of ruin are also included. Furthermore, exact values of both the risk measures as well as the probability of ruin are available if the individual claims follow a hypo-exponential distribution (i. e., if it can be represented as a sum of independent exponentially distributed random variables with different rate parameters). For more details see Gatto and Baumgartner (2014) <doi:10.1007/s11009-012-9316-5>.
Maintained by Benjamin Baumgartner. Last updated 6 years ago.
0.5 match 1.52 score 11 scripts 1 dependentscran
OptionPricing:Option Pricing with Efficient Simulation Algorithms
Efficient Monte Carlo Algorithms for the price and the sensitivities of Asian and European Options under Geometric Brownian Motion.
Maintained by Wolfgang Hormann. Last updated 2 years ago.
0.5 match 2 stars 1.30 scorecaetanods
do3PCA:Probabilistic Phylogenetic Principal Component Analysis
Estimates probabilistic phylogenetic Principal Component Analysis (PCA) and non-phylogenetic probabilistic PCA. Provides methods to implement alternative models of trait evolution including Brownian motion (BM), Ornstein-Uhlenbeck (OU), Early Burst (EB), and Pagel's lambda. Also provides flexible biplot functions.
Maintained by Daniel Caetano. Last updated 6 months ago.
0.5 match 1.00 score