Showing 43 of total 43 results (show query)
bstewart
stm:Estimation of the Structural Topic Model
The Structural Topic Model (STM) allows researchers to estimate topic models with document-level covariates. The package also includes tools for model selection, visualization, and estimation of topic-covariate regressions. Methods developed in Roberts et. al. (2014) <doi:10.1111/ajps.12103> and Roberts et. al. (2016) <doi:10.1080/01621459.2016.1141684>. Vignette is Roberts et. al. (2019) <doi:10.18637/jss.v091.i02>.
Maintained by Brandon Stewart. Last updated 1 years ago.
9.1 match 404 stars 12.63 score 1.6k scripts 6 dependents
riatelab
potential:Implementation of the Potential Model
Provides functions to compute the potential model as defined by Stewart (1941) <doi:10.1126/science.93.2404.89>. Several options are available to customize the model, such as the possibility to fine-tune the distance friction functions or to use custom distance matrices. Some computations are parallelized to improve their efficiency.
Maintained by Timothée Giraud. Last updated 2 years ago.
11.5 match 26 stars 4.32 score 16 scripts
cstewartgh
QFASA:Quantitative Fatty Acid Signature Analysis
Accurate estimates of the diets of predators are required in many areas of ecology, but for many species current methods are imprecise, limited to the last meal, and often biased. The diversity of fatty acids and their patterns in organisms, coupled with the narrow limitations on their biosynthesis, properties of digestion in monogastric animals, and the prevalence of large storage reservoirs of lipid in many predators, led to the development of quantitative fatty acid signature analysis (QFASA) to study predator diets.
Maintained by Connie Stewart. Last updated 7 months ago.
9.0 match 1 stars 4.83 score 17 scripts
rudeboybert
fivethirtyeight:Data and Code Behind the Stories and Interactives at 'FiveThirtyEight'
Datasets and code published by the data journalism website 'FiveThirtyEight' available at <https://github.com/fivethirtyeight/data>. Note that while we received guidance from editors at 'FiveThirtyEight', this package is not officially published by 'FiveThirtyEight'.
Maintained by Albert Y. Kim. Last updated 2 years ago.
data-sciencedatajournalismfivethirtyeightstatistics
3.4 match 453 stars 10.98 score 1.7k scripts
ropensci
skimr:Compact and Flexible Summaries of Data
A simple to use summary function that can be used with pipes and displays nicely in the console. The default summary statistics may be modified by the user as can the default formatting. Support for data frames and vectors is included, and users can implement their own skim methods for specific object types as described in a vignette. Default summaries include support for inline spark graphs. Instructions for managing these on specific operating systems are given in the "Using skimr" vignette and the README.
Maintained by Elin Waring. Last updated 2 months ago.
peer-reviewedropenscisummary-statisticsunconfunconf17
1.5 match 1.1k stars 16.80 score 18k scripts 14 dependents
cran
mlergm:Multilevel Exponential-Family Random Graph Models
Estimates exponential-family random graph models for multilevel network data, assuming the multilevel structure is observed. The scope, at present, covers multilevel models where the set of nodes is nested within known blocks. The estimation method uses Monte-Carlo maximum likelihood estimation (MCMLE) methods to estimate a variety of canonical or curved exponential family models for binary random graphs. MCMLE methods for curved exponential-family random graph models can be found in Hunter and Handcock (2006) <DOI: 10.1198/106186006X133069>. The package supports parallel computing, and provides methods for assessing goodness-of-fit of models and visualization of networks.
Maintained by Jonathan Stewart. Last updated 4 years ago.
9.2 match 1 stars 2.18 score 15 scripts
michaelstats
waved:Wavelet Deconvolution
Makes available code necessary to reproduce figures and tables in papers on the WaveD method for wavelet deconvolution of noisy signals as presented in The WaveD Transform in R, Journal of Statistical Software Volume 21, No. 3, 2007.
Maintained by Michael Stewart. Last updated 1 years ago.
10.1 match 1.72 score 52 scripts
r4ss
r4ss:R Code for Stock Synthesis
A collection of R functions for use with Stock Synthesis, a fisheries stock assessment modeling platform written in ADMB by Dr. Richard D. Methot at the NOAA Northwest Fisheries Science Center. The functions include tools for summarizing and plotting results, manipulating files, visualizing model parameterizations, and various other common stock assessment tasks. This version of '{r4ss}' is compatible with Stock Synthesis versions 3.24 through 3.30 (specifically version 3.30.23.1, from December 2024). Support for 3.24 models is only through the core functions for reading output and plotting.
Maintained by Ian G. Taylor. Last updated 5 days ago.
fisheriesfisheries-stock-assessmentstock-synthesis
1.5 match 43 stars 11.38 score 1.0k scripts 2 dependents
nlmixr2
rxode2:Facilities for Simulating from ODE-Based Models
Facilities for running simulations from ordinary differential equation ('ODE') models, such as pharmacometrics and other compartmental models. A compilation manager translates the ODE model into C, compiles it, and dynamically loads the object code into R for improved computational efficiency. An event table object facilitates the specification of complex dosing regimens (optional) and sampling schedules. NB: The use of this package requires both C and Fortran compilers, for details on their use with R please see Section 6.3, Appendix A, and Appendix D in the "R Administration and Installation" manual. Also the code is mostly released under GPL. The 'VODE' and 'LSODA' are in the public domain. The information is available in the inst/COPYRIGHTS.
Maintained by Matthew L. Fidler. Last updated 30 days ago.
1.5 match 40 stars 11.24 score 220 scripts 13 dependents
gjmvanboxtel
gsignal:Signal Processing
R implementation of the 'Octave' package 'signal', containing a variety of signal processing tools, such as signal generation and measurement, correlation and convolution, filtering, filter design, filter analysis and conversion, power spectrum analysis, system identification, decimation and sample rate change, and windowing.
Maintained by Geert van Boxtel. Last updated 2 months ago.
1.5 match 24 stars 10.03 score 133 scripts 34 dependents
centerforassessment
SGP:Student Growth Percentiles & Percentile Growth Trajectories
An analytic framework for the calculation of norm- and criterion-referenced academic growth estimates using large scale, longitudinal education assessment data as developed in Betebenner (2009) <doi:10.1111/j.1745-3992.2009.00161.x>.
Maintained by Damian W. Betebenner. Last updated 2 months ago.
percentile-growth-projectionsquantile-regressionsgpsgp-analysesstudent-growth-percentilesstudent-growth-projections
1.5 match 20 stars 9.69 score 88 scripts
prodriguezsosa
conText:'a la Carte' on Text (ConText) Embedding Regression
A fast, flexible and transparent framework to estimate context-specific word and short document embeddings using the 'a la carte' embeddings approach developed by Khodak et al. (2018) <arXiv:1805.05388> and evaluate hypotheses about covariate effects on embeddings using the regression framework developed by Rodriguez et al. (2021)<https://github.com/prodriguezsosa/EmbeddingRegression>.
Maintained by Pedro L. Rodriguez. Last updated 11 months ago.
1.5 match 104 stars 9.40 score 1.7k scripts
r-forge
signal:Signal Processing
A set of signal processing functions originally written for 'Matlab' and 'Octave'. Includes filter generation utilities, filtering functions, resampling routines, and visualization of filter models. It also includes interpolation functions.
Maintained by Uwe Ligges. Last updated 1 years ago.
1.5 match 8.78 score 828 scripts 151 dependents
r-a-dobson
dynamicSDM:Species Distribution and Abundance Modelling at High Spatio-Temporal Resolution
A collection of novel tools for generating species distribution and abundance models (SDM) that are dynamic through both space and time. These highly flexible functions incorporate spatial and temporal aspects across key SDM stages; including when cleaning and filtering species occurrence data, generating pseudo-absence records, assessing and correcting sampling biases and autocorrelation, extracting explanatory variables and projecting distribution patterns. Throughout, functions utilise Google Earth Engine and Google Drive to minimise the computing power and storage demands associated with species distribution modelling at high spatio-temporal resolution.
Maintained by Rachel Dobson. Last updated 27 days ago.
dynamicsdmgoogle-earth-enginegoogledrivesdmspatiotemporalspatiotemporal-data-analysisspatiotemporal-forecastingspecies-distribution-modellingspecies-distributions
1.5 match 6 stars 6.16 score 20 scripts
edm44
msdrought:Seasonal Mid-Summer Drought Characteristics
Characterization of a mid-summer drought (MSD) with precipitation based statistics. The MSD is a phenomenon of decreased rainfall during a typical rainy season. It is a feature of rainfall in much of Central America and is also found in other locations, typically those with a Mediterranean climate. Details on the metrics are in Maurer et al. (2022) <doi:10.5194/hess-26-1425-2022>.
Maintained by Ed Maurer. Last updated 9 days ago.
1.6 match 5.30 score 6 scripts
zuoyi93
ProSGPV:Penalized Regression with Second-Generation P-Values
Implementation of penalized regression with second-generation p-values for variable selection. The algorithm can handle linear regression, GLM, and Cox regression. S3 methods print(), summary(), coef(), predict(), and plot() are available for the algorithm. Technical details can be found at Zuo et al. (2021) <doi:10.1080/00031305.2021.1946150>.
Maintained by Yi Zuo. Last updated 4 years ago.
1.6 match 5 stars 4.70 score 9 scripts
arni-magnusson
plotMCMC:MCMC Diagnostic Plots
Markov chain Monte Carlo diagnostic plots. The purpose of the package is to combine existing tools from the 'coda' and 'lattice' packages, and make it easy to adjust graphical details.
Maintained by Arni Magnusson. Last updated 1 years ago.
1.7 match 1 stars 4.27 score 37 scriptsr-forge
multiColl:Collinearity Detection in a Multiple Linear Regression Model
The detection of worrying approximate collinearity in a multiple linear regression model is a problem addressed in all existing statistical packages. However, we have detected deficits regarding to the incorrect treatment of qualitative independent variables and the role of the intercept of the model. The objective of this package is to correct these deficits. In this package will be available detection and treatment techniques traditionally used as the recently developed. D.A. Belsley (1982) <doi:10.1016/0304-4076(82)90020-3>. D. A. Belsley (1991, ISBN: 978-0471528890). C. Garcia, R. Salmeron and C.B. Garcia (2019) <doi:10.1080/00949655.2018.1543423>. R. Salmeron, C.B. Garcia and J. Garcia (2018) <doi:10.1080/00949655.2018.1463376>. G.W. Stewart (1987) <doi:10.1214/ss/1177013444>.
Maintained by R. Salmeron. Last updated 2 years ago.
2.8 match 2.59 score 13 scripts 1 dependents
lifebit-ai
cloudos:R Client Library for CloudOS
The 'CloudOS' client library for R makes it easy to interact with CloudOS in the R environment for analysis.
Maintained by Sangram Keshari Sahu. Last updated 2 years ago.
1.6 match 8 stars 4.08 score 5 scripts
thomasgstewart
tangram.pipe:Row-by-Row Table Building
Builds tables with customizable rows. Users can specify the type of data to use for each row, as well as how to handle missing data and the types of comparison tests to run on the table columns.
Maintained by Andrew Guide. Last updated 3 years ago.
1.7 match 1 stars 3.60 score 1 scripts
jgdowty
clipp:Calculating Likelihoods by Pedigree Paring
A fast and general implementation of the Elston-Stewart algorithm that can calculate the likelihoods of large and complex pedigrees. References for the Elston-Stewart algorithm are Elston & Stewart (1971) <doi:10.1159/000152448>, Lange & Elston (1975) <doi:10.1159/000152714> and Cannings et al. (1978) <doi:10.2307/1426718>.
Maintained by James Dowty. Last updated 3 years ago.
2.3 match 2.48 score 3 scripts 1 dependents
dzangri
stmgui:Shiny Application for Creating STM Models
Provides an application that acts as a GUI for the 'stm' text analysis package.
Maintained by Dan Zangri. Last updated 8 years ago.
1.7 match 5 stars 3.40 score 4 scripts
weltybiostat
sgpv:Calculate Second-Generation p-Values and Associated Measures
Computation of second-generation p-values as described in Blume et al. (2018) <doi:10.1371/journal.pone.0188299> and Blume et al. (2019) <doi:10.1080/00031305.2018.1537893>. There are additional functions which provide power and type I error calculations, create graphs (particularly suited for large-scale inference usage), and a function to estimate false discovery rates based on second-generation p-value inference.
Maintained by Valerie Welty. Last updated 4 years ago.
1.6 match 4 stars 3.48 score 15 scripts
rjacobucci
longRPart2:Recursive Partitioning of Longitudinal Data
Performs recursive partitioning of linear and nonlinear mixed effects models, specifically for longitudinal data. The package is an extension of the original 'longRPart' package by Stewart and Abdolell (2013) <https://cran.r-project.org/package=longRPart>.
Maintained by Ross Jacobucci. Last updated 2 years ago.
2.1 match 2 stars 2.58 score 19 scriptsthomasgstewart
repello:Reports from Trello in R
Creates reports from Trello, a collaborative, project organization and list-making application. <https://trello.com/> Reports are created by comparing individual Trello board cards from two different points in time and documenting any changes made to the cards.
Maintained by Andrew Guide. Last updated 4 years ago.
1.7 match 3.00 score
magnusdv
pedprobr:Probability Computations on Pedigrees
An implementation of the Elston-Stewart algorithm for calculating pedigree likelihoods given genetic marker data (Elston and Stewart (1971) <doi:10.1159/000152448>). The standard algorithm is extended to allow inbred founders. 'pedprobr' is part of the 'pedsuite', a collection of packages for pedigree analysis in R. In particular, 'pedprobr' depends on 'pedtools' for pedigree manipulations and 'pedmut' for mutation modelling. For more information, see 'Pedigree Analysis in R' (Vigeland, 2021, ISBN:9780128244302).
Maintained by Magnus Dehli Vigeland. Last updated 3 days ago.
0.8 match 4 stars 5.77 score 6 scripts 11 dependents
rsbivand
spgwr:Geographically Weighted Regression
Functions for computing geographically weighted regressions are provided, based on work by Chris Brunsdon, Martin Charlton and Stewart Fotheringham.
Maintained by Roger Bivand. Last updated 9 months ago.
0.5 match 3 stars 8.14 score 436 scripts 3 dependentscran
stmCorrViz:A Tool for Structural Topic Model Visualizations
Generates an interactive visualization of topic correlations/ hierarchy in a Structural Topic Model (STM) of Roberts, Stewart, and Tingley. The package performs a hierarchical clustering of topics which are then exported to a JSON object and visualized using D3.
Maintained by Antonio Coppola. Last updated 9 years ago.
2.2 match 5 stars 1.70 scorecran
validateIt:Validating Topic Coherence and Topic Labels
By creating crowd-sourcing tasks that can be easily posted and results retrieved using Amazon's Mechanical Turk (MTurk) API, researchers can use this solution to validate the quality of topics obtained from unsupervised or semi-supervised learning methods, and the relevance of topic labels assigned. This helps ensure that the topic modeling results are accurate and useful for research purposes. See Ying and others (2022) <doi:10.1101/2023.05.02.538599>. For more information, please visit <https://github.com/Triads-Developer/Topic_Model_Validation>.
Maintained by Luwei Ying. Last updated 2 years ago.
1.6 match 1.70 score 2 scripts
eric-lamb
sesem:Spatially Explicit Structural Equation Modeling
Structural equation modeling is a powerful statistical approach for the testing of networks of direct and indirect theoretical causal relationships in complex data sets with inter-correlated dependent and independent variables. Here we implement a simple method for spatially explicit structural equation modeling based on the analysis of variance co-variance matrices calculated across a range of lag distances. This method provides readily interpreted plots of the change in path coefficients across scale.
Maintained by Eric Lamb. Last updated 9 years ago.
1.6 match 2 stars 1.58 score 19 scripts
jinghuazhao
gaawr2:Genetic Association Analysis
It gathers information, meta-data and scripts in a two-part Henry-Stewart talk by Zhao (2009, <doi:10.69645/DCRY5578>), which showcases analysis in aspects such as testing of polymorphic variant(s) for Hardy-Weinberg equilibrium, association with trait using genetic and statistical models as well as Bayesian implementation, power calculation in study design and genetic annotation. It also covers R integration with the Linux environment, GitHub, package creation and web applications.
Maintained by Jing Hua Zhao. Last updated 2 days ago.
0.5 match 4.90 score
ychen101
LogConcDEAD:Log-Concave Density Estimation in Arbitrary Dimensions
Software for computing a log-concave (maximum likelihood) estimator for independent and identically distributed data in any number of dimensions. For a detailed description of the method see Cule, Samworth and Stewart (2010, Journal of Royal Statistical Society Series B, <doi:10.1111/j.1467-9868.2010.00753.x>).
Maintained by Yining Chen. Last updated 3 days ago.
0.5 match 3.16 score 23 scripts 1 dependents
leilamarvian
GISINTEGRATION:GIS Integration
Designed to facilitate the preprocessing and linking of GIS (Geographic Information System) databases <https://www.sciencedirect.com/topics/computer-science/gis-database>, the R package 'GISINTEGRATION' offers a robust solution for efficiently preparing GIS data for advanced spatial analyses. This package excels in simplifying intrica procedures like data cleaning, normalization, and format conversion, ensuring that the data are optimally primed for precise and thorough analysis.
Maintained by Leila Marvian Mashhad. Last updated 1 years ago.
1.6 match 1.00 score
tsprass
BTSR:Bounded Time Series Regression
Simulate, estimate and forecast a wide range of regression based dynamic models for bounded time series, covering the most commonly applied models in the literature. The main calculations are done in 'FORTRAN', which translates into very fast algorithms. The main references are Bayer et al. (2017) <doi:10.1016/j.jhydrol.2017.10.006>, Pumi et al. (2019) <doi:10.1016/j.jspi.2018.10.001>, Pumi et al. (2021) <doi:10.1111/sjos.12439> and Pumi et al. (2022) <arXiv:2211.02097>.
Maintained by Taiane Schaedler Prass. Last updated 1 years ago.
1.5 match 1 stars 1.00 score 3 scripts
jto888
CARMS:Continuous Time Markov Rate Modeling for Reliability Analysis
Emulation of an application originally created by Paul Pukite. Computer Aided Rate Modeling and Simulation. Jan Pukite and Paul Pukite, (1998, ISBN 978-0-7803-3482), William J. Stewart, (1994, ISBN: 0-691-03699-3).
Maintained by Jacob Ormerod. Last updated 12 months ago.
0.5 match 1.70 score 50 scripts
