Showing 96 of total 96 results (show query)
merlinoa
shinyFeedback:Display User Feedback in Shiny Apps
Easily display user feedback in Shiny apps.
Maintained by Andy Merlino. Last updated 3 years ago.
23.2 match 190 stars 10.58 score 209 scripts 16 dependents
fmichonneau
foghorn:Summarize CRAN Check Results in the Terminal
The CRAN check results and where your package stands in the CRAN submission queue in your R terminal.
Maintained by Francois Michonneau. Last updated 9 months ago.
12.5 match 58 stars 8.76 score 21 scripts
david-cortes
recometrics:Evaluation Metrics for Implicit-Feedback Recommender Systems
Calculates evaluation metrics for implicit-feedback recommender systems that are based on low-rank matrix factorization models, given the fitted model matrices and data, thus allowing to compare models from a variety of libraries. Metrics include P@K (precision-at-k, for top-K recommendations), R@K (recall at k), AP@K (average precision at k), NDCG@K (normalized discounted cumulative gain at k), Hit@K (from which the 'Hit Rate' is calculated), RR@K (reciprocal rank at k, from which the 'MRR' or 'mean reciprocal rank' is calculated), ROC-AUC (area under the receiver-operating characteristic curve), and PR-AUC (area under the precision-recall curve). These are calculated on a per-user basis according to the ranking of items induced by the model, using efficient multi-threaded routines. Also provides functions for creating train-test splits for model fitting and evaluation.
Maintained by David Cortes. Last updated 2 months ago.
implicit-feedbackmatrix-factorizationrecommender-systemsopenblascppopenmp
14.0 match 28 stars 5.45 score
igraph
igraph:Network Analysis and Visualization
Routines for simple graphs and network analysis. It can handle large graphs very well and provides functions for generating random and regular graphs, graph visualization, centrality methods and much more.
Maintained by Kirill Müller. Last updated 5 hours ago.
complex-networksgraph-algorithmsgraph-theorymathematicsnetwork-analysisnetwork-graphfortranlibxml2glpkopenblascpp
3.6 match 582 stars 21.11 score 31k scripts 1.9k dependents
bioc
psichomics:Graphical Interface for Alternative Splicing Quantification, Analysis and Visualisation
Interactive R package with an intuitive Shiny-based graphical interface for alternative splicing quantification and integrative analyses of alternative splicing and gene expression based on The Cancer Genome Atlas (TCGA), the Genotype-Tissue Expression project (GTEx), Sequence Read Archive (SRA) and user-provided data. The tool interactively performs survival, dimensionality reduction and median- and variance-based differential splicing and gene expression analyses that benefit from the incorporation of clinical and molecular sample-associated features (such as tumour stage or survival). Interactive visual access to genomic mapping and functional annotation of selected alternative splicing events is also included.
Maintained by Nuno Saraiva-Agostinho. Last updated 5 months ago.
sequencingrnaseqalternativesplicingdifferentialsplicingtranscriptionguiprincipalcomponentsurvivalbiomedicalinformaticstranscriptomicsimmunooncologyvisualizationmultiplecomparisongeneexpressiondifferentialexpressionalternative-splicingbioconductordata-analysesdifferential-gene-expressiondifferential-splicing-analysisgene-expressiongtexrecount2rna-seq-datasplicing-quantificationsratcgavast-toolscpp
8.8 match 36 stars 6.95 score 31 scripts
miracum
DIZtools:Lightweight Utilities for 'DIZ' R Package Development
Lightweight utility functions used for the R package development infrastructure inside the data integration centers ('DIZ') to standardize and facilitate repetitive tasks such as setting up a database connection or issuing notification messages and to avoid redundancy.
Maintained by Jonathan M. Mang. Last updated 1 years ago.
12.2 match 3 stars 4.13 score 2 scripts 3 dependents
oakleyj
SHELF:Tools to Support the Sheffield Elicitation Framework
Implements various methods for eliciting a probability distribution for a single parameter from an expert or a group of experts. The expert provides a small number of probability judgements, corresponding to points on his or her cumulative distribution function. A range of parametric distributions can then be fitted and displayed, with feedback provided in the form of fitted probabilities and percentiles. For multiple experts, a weighted linear pool can be calculated. Also includes functions for eliciting beliefs about population distributions; eliciting multivariate distributions using a Gaussian copula; eliciting a Dirichlet distribution; eliciting distributions for variance parameters in a random effects meta-analysis model; survival extrapolation. R Shiny apps for most of the methods are included.
Maintained by Jeremy Oakley. Last updated 16 days ago.
5.6 match 19 stars 8.90 score 73 scripts 3 dependents
ibecav
CGPfunctions:Powell Miscellaneous Functions for Teaching and Learning Statistics
Miscellaneous functions useful for teaching statistics as well as actually practicing the art. They typically are not new methods but rather wrappers around either base R or other packages.
Maintained by Chuck Powell. Last updated 4 years ago.
6.0 match 27 stars 7.28 score 122 scripts
r-world-devs
shinyCohortBuilder:Modular Cohort-Building Framework for Analytical Dashboards
You can easily add advanced cohort-building component to your analytical dashboard or simple 'Shiny' app. Then you can instantly start building cohorts using multiple filters of different types, filtering datasets, and filtering steps. Filters can be complex and data-specific, and together with multiple filtering steps you can use complex filtering rules. The cohort-building sidebar panel allows you to easily work with filters, add and remove filtering steps. It helps you with handling missing values during filtering, and provides instant filtering feedback with filter feedback plots. The GUI panel is not only compatible with native shiny bookmarking, but also provides reproducible R code.
Maintained by Krystian Igras. Last updated 1 months ago.
6.2 match 7 stars 7.05 score 40 scripts
benubah
control:A Control Systems Toolbox
Solves control systems problems relating to time/frequency response, LTI systems design and analysis, transfer function manipulations, and system conversion.
Maintained by Ben C. Ubah. Last updated 5 years ago.
7.2 match 19 stars 5.86 score 76 scripts
arrismo
lubrilog:Get Insights on 'lubridate' Operations
Provides a set of tools designed to enhance transparency and understanding of date-time manipulation functions from the 'lubridate' package. It provides detailed feedback about the operations performed by 'lubridate' functions, allowing users to better comprehend and debug their code. These insights serve as both a learning tool for newcomers and a debugging aid for programmers working with date-time data.
Maintained by Mikael Moise. Last updated 4 months ago.
10.5 match 2 stars 3.60 score 9 scripts
gojiplus
clarifai:Access to Clarifai API
Get description of images from Clarifai API. For more information, see <http://clarifai.com>. Clarifai uses a large deep learning cloud to come up with descriptive labels of the things in an image. It also provides how confident it is about each of the labels.
Maintained by Gaurav Sood. Last updated 8 years ago.
6.7 match 13 stars 5.49 score 24 scriptsdavid-cortes
poismf:Factorization of Sparse Counts Matrices Through Poisson Likelihood
Creates a non-negative low-rank approximate factorization of a sparse counts matrix by maximizing Poisson likelihood with L1/L2 regularization (e.g. for implicit-feedback recommender systems or bag-of-words-based topic modeling) (Cortes, (2018) <arXiv:1811.01908>), which usually leads to very sparse user and item factors (over 90% zero-valued). Similar to hierarchical Poisson factorization (HPF), but follows an optimization-based approach with regularization instead of a hierarchical prior, and is fit through gradient-based methods instead of variational inference.
Maintained by David Cortes. Last updated 9 months ago.
implicit-feedbackpoisson-factorizationopenblasopenmp
8.0 match 46 stars 4.36 score 9 scripts
danheck
metaBMA:Bayesian Model Averaging for Random and Fixed Effects Meta-Analysis
Computes the posterior model probabilities for standard meta-analysis models (null model vs. alternative model assuming either fixed- or random-effects, respectively). These posterior probabilities are used to estimate the overall mean effect size as the weighted average of the mean effect size estimates of the random- and fixed-effect model as proposed by Gronau, Van Erp, Heck, Cesario, Jonas, & Wagenmakers (2017, <doi:10.1080/23743603.2017.1326760>). The user can define a wide range of non-informative or informative priors for the mean effect size and the heterogeneity coefficient. Moreover, using pre-compiled Stan models, meta-analysis with continuous and discrete moderators with Jeffreys-Zellner-Siow (JZS) priors can be fitted and tested. This allows to compute Bayes factors and perform Bayesian model averaging across random- and fixed-effects meta-analysis with and without moderators. For a primer on Bayesian model-averaged meta-analysis, see Gronau, Heck, Berkhout, Haaf, & Wagenmakers (2021, <doi:10.1177/25152459211031256>).
Maintained by Daniel W. Heck. Last updated 1 years ago.
bayesbayes-factorbayesian-inferenceevidence-synthesismeta-analysismodel-averagingstancpp
3.8 match 28 stars 7.70 score 54 scripts 4 dependents
ssoubeyrand
FeedbackTS:Analysis of Feedback in Time Series
Analysis of fragmented time directionality to investigate feedback in time series. Tools provided by the package allow the analysis of feedback for a single time series and the analysis of feedback for a set of time series collected across a spatial domain.
Maintained by Samuel Soubeyrand. Last updated 5 years ago.
23.3 match 1.23 score 17 scripts
levimcclenny
BoolFilter:Optimal Estimation of Partially Observed Boolean Dynamical Systems
Tools for optimal and approximate state estimation as well as network inference of Partially-Observed Boolean Dynamical Systems.
Maintained by Levi McClenny. Last updated 7 years ago.
6.9 match 3.70 score 10 scripts
myeomans
doc2concrete:Measuring Concreteness in Natural Language
Models for detecting concreteness in natural language. This package is built in support of Yeomans (2021) <doi:10.1016/j.obhdp.2020.10.008>, which reviews linguistic models of concreteness in several domains. Here, we provide an implementation of the best-performing domain-general model (from Brysbaert et al., (2014) <doi:10.3758/s13428-013-0403-5>) as well as two pre-trained models for the feedback and plan-making domains.
Maintained by Mike Yeomans. Last updated 1 years ago.
4.5 match 13 stars 5.59 score 20 scripts 1 dependents
eduardklap
neuroUp:Plan Sample Size for Task fMRI Research using Bayesian Updating
Calculate the precision in mean differences (raw or Cohen's D) and correlation coefficients for different sample sizes. Uses permutations of the collected functional magnetic resonance imaging (fMRI) region of interest data. Method described in Klapwijk, Jongerling, Hoijtink and Crone (2024) <doi:10.31234/osf.io/cz32t>.
Maintained by Eduard Klapwijk. Last updated 19 days ago.
4.8 match 2 stars 4.90 score 8 scripts
rogiersbart
rui:A simple set of UI functions
This package provides a wrapper around different cli and usethis functions, aiming at providing a small but consistent set of verbs to construct a simple R package UI.
Maintained by Bart Rogiers. Last updated 9 months ago.
6.3 match 3.48 score 2 dependents
teachinglab
tlShiny:Supplies essential functions to Teaching Lab dashboards
A bunch of random functions I use in developing dashboards Needs to vastly reduce the number of dependencies at the moment.
Maintained by Duncan Gates. Last updated 13 days ago.
6.8 match 3.04 score
crlsierra
SoilR:Models of Soil Organic Matter Decomposition
Functions for modeling Soil Organic Matter decomposition in terrestrial ecosystems with linear and nonlinear systems of differential equations. The package implements models according to the compartmental system representation described in Sierra and others (2012) <doi:10.5194/gmd-5-1045-2012> and Sierra and others (2014) <doi:10.5194/gmd-7-1919-2014>.
Maintained by Carlos A. Sierra. Last updated 1 years ago.
6.9 match 5 stars 2.88 score 153 scripts
juba
explor:Interactive Interfaces for Results Exploration
Shiny interfaces and graphical functions for multivariate analysis results exploration.
Maintained by Julien Barnier. Last updated 1 years ago.
htmlwidgetsmultivariate-analysisshiny
2.2 match 193 stars 8.20 score 93 scripts 2 dependents
hughjonesd
santoku:A Versatile Cutting Tool
A tool for cutting data into intervals. Allows singleton intervals. Always includes the whole range of data by default. Flexible labelling. Convenience functions for cutting by quantiles etc. Handles dates, times, units and other vectors.
Maintained by David Hugh-Jones. Last updated 10 months ago.
2.2 match 138 stars 8.00 score 108 scripts 2 dependentsbioc
phantasus:Visual and interactive gene expression analysis
Phantasus is a web-application for visual and interactive gene expression analysis. Phantasus is based on Morpheus – a web-based software for heatmap visualisation and analysis, which was integrated with an R environment via OpenCPU API. Aside from basic visualization and filtering methods, R-based methods such as k-means clustering, principal component analysis or differential expression analysis with limma package are supported.
Maintained by Alexey Sergushichev. Last updated 5 months ago.
geneexpressionguivisualizationdatarepresentationtranscriptomicsrnaseqmicroarraynormalizationclusteringdifferentialexpressionprincipalcomponentimmunooncology
2.2 match 43 stars 7.68 score 15 scripts
pepijn-devries
ggsankeyfier:Create Sankey and Alluvial Diagrams Using 'ggplot2'
Sankey and alluvial diagrams visualise flows of quantities across stages in stacked bars. This package makes it easy to create such diagrams using 'ggplot2'.
Maintained by Pepijn de Vries. Last updated 7 months ago.
2.2 match 15 stars 7.09 score 59 scripts
rjknell
Biostatistics:Statistics Tutorials for Biologists
Tutorials for statistics, aimed at biological scientists. Subjects range from basic descriptive statistics through to complex linear modelling. The tutorials include text, videos, interactive coding exercises and multiple choice quizzes. The package also includes 19 datasets which are used in the tutorials.
Maintained by Rob Knell. Last updated 3 years ago.
3.4 match 4.54 score 5 scripts
timelyportfolio
sunburstR:Sunburst 'Htmlwidget'
Make interactive 'd3.js' sequence sunburst diagrams in R with the convenience and infrastructure of an 'htmlwidget'.
Maintained by Kent Russell. Last updated 2 years ago.
chartd3htmlwidgetsinteractivejavascriptvisualization
1.5 match 210 stars 10.02 score 310 scripts 4 dependents
agroscope-ch
srppp:Read the Swiss Register of Plant Protection Products
Generate data objects from XML versions of the Swiss Register of Plant Protection Products. An online version of the register can be accessed at <https://www.psm.admin.ch/de/produkte>. There is no guarantee of correspondence of the data read in using this package with that online version, or with the original registration documents. Also, the Federal Food Safety and Veterinary Office, coordinating the authorisation of plant protection products in Switzerland, does not answer requests regarding this package.
Maintained by Johannes Ranke. Last updated 25 days ago.
2.4 match 6.31 score 20 scripts 1 dependents
julianwadeoolman
ioanalysis:Input Output Analysis
Calculates fundamental IO matrices (Leontief, Wassily W. (1951) <doi:10.1038/scientificamerican1051-15>); within period analysis via various rankings and coefficients (Sonis and Hewings (2006) <doi:10.1080/09535319200000013>, Blair and Miller (2009) <ISBN:978-0-521-73902-3>, Antras et al (2012) <doi:10.3386/w17819>, Hummels, Ishii, and Yi (2001) <doi:10.1016/S0022-1996(00)00093-3>); across period analysis with impact analysis (Dietzenbacher, van der Linden, and Steenge (2006) <doi:10.1080/09535319300000017>, Sonis, Hewings, and Guo (2006) <doi:10.1080/09535319600000002>); and a variety of table operators.
Maintained by John Wade. Last updated 4 years ago.
6.3 match 5 stars 2.32 score 42 scripts
keithmcnulty
peopleanalyticsdata:Data Sets for Keith McNulty's Handbook of Regression Modeling in People Analytics
Data sets for statistical inference modeling related to People Analytics. Contains various data sets from the book 'Handbook of Regression Modeling in People Analytics' by Keith McNulty (2020).
Maintained by Keith McNulty. Last updated 4 years ago.
3.8 match 6 stars 3.71 score 17 scripts
dsstoffer
astsa:Applied Statistical Time Series Analysis
Contains data sets and scripts for analyzing time series in both the frequency and time domains including state space modeling as well as supporting the texts Time Series Analysis and Its Applications: With R Examples (5th ed), by R.H. Shumway and D.S. Stoffer. Springer Texts in Statistics, 2025, <https://link.springer.com/book/9783031705830>, and Time Series: A Data Analysis Approach Using R. Chapman-Hall, 2019, <DOI:10.1201/9780429273285>.
Maintained by David Stoffer. Last updated 2 months ago.
1.8 match 7 stars 7.86 score 2.2k scripts 8 dependents
sciviews
svUnit:'SciViews' - Unit, Integration and System Testing
A complete unit test system.
Maintained by Philippe Grosjean. Last updated 3 years ago.
1.7 match 3 stars 8.07 score 72 scripts 28 dependents
ipd-tools
ipd:Inference on Predicted Data
Performs valid statistical inference on predicted data (IPD) using recent methods, where for a subset of the data, the outcomes have been predicted by an algorithm. Provides a wrapper function with specified defaults for the type of model and method to be used for estimation and inference. Further provides methods for tidying and summarizing results. Salerno et al., (2024) <doi:10.48550/arXiv.2410.09665>.
Maintained by Stephen Salerno. Last updated 2 months ago.
2.2 match 8 stars 6.13 score 5 scripts
ropensci
GSODR:Global Surface Summary of the Day ('GSOD') Weather Data Client
Provides automated downloading, parsing, cleaning, unit conversion and formatting of Global Surface Summary of the Day ('GSOD') weather data from the from the USA National Centers for Environmental Information ('NCEI'). Units are converted from from United States Customary System ('USCS') units to International System of Units ('SI'). Stations may be individually checked for number of missing days defined by the user, where stations with too many missing observations are omitted. Only stations with valid reported latitude and longitude values are permitted in the final data. Additional useful elements, saturation vapour pressure ('es'), actual vapour pressure ('ea') and relative humidity ('RH') are calculated from the original data using the improved August-Roche-Magnus approximation (Alduchov & Eskridge 1996) and included in the final data set. The resulting metadata include station identification information, country, state, latitude, longitude, elevation, weather observations and associated flags. For information on the 'GSOD' data from 'NCEI', please see the 'GSOD' 'readme.txt' file available from, <https://www1.ncdc.noaa.gov/pub/data/gsod/readme.txt>.
Maintained by Adam H. Sparks. Last updated 11 days ago.
us-nceimeteorological-dataglobal-weatherweatherweather-datameteorologystation-datasurface-weatherdata-accessus-ncdcdaily-datadaily-weatherglobal-datagsodhistorical-datahistorical-weatherncdcnceiweather-informationweather-stations
1.5 match 94 stars 8.70 score 116 scriptsropensci
weatherOz:An API Client for Australian Weather and Climate Data Resources
Provides automated downloading, parsing and formatting of weather data for Australia through API endpoints provided by the Department of Primary Industries and Regional Development ('DPIRD') of Western Australia and by the Science and Technology Division of the Queensland Government's Department of Environment and Science ('DES'). As well as the Bureau of Meteorology ('BOM') of the Australian government precis and coastal forecasts, and downloading and importing radar and satellite imagery files. 'DPIRD' weather data are accessed through public 'APIs' provided by 'DPIRD', <https://www.agric.wa.gov.au/weather-api-20>, providing access to weather station data from the 'DPIRD' weather station network. Australia-wide weather data are based on data from the Australian Bureau of Meteorology ('BOM') data and accessed through 'SILO' (Scientific Information for Land Owners) Jeffrey et al. (2001) <doi:10.1016/S1364-8152(01)00008-1>. 'DPIRD' data are made available under a Creative Commons Attribution 3.0 Licence (CC BY 3.0 AU) license <https://creativecommons.org/licenses/by/3.0/au/deed.en>. SILO data are released under a Creative Commons Attribution 4.0 International licence (CC BY 4.0) <https://creativecommons.org/licenses/by/4.0/>. 'BOM' data are (c) Australian Government Bureau of Meteorology and released under a Creative Commons (CC) Attribution 3.0 licence or Public Access Licence ('PAL') as appropriate, see <http://www.bom.gov.au/other/copyright.shtml> for further details.
Maintained by Rodrigo Pires. Last updated 20 days ago.
dpirdbommeteorological-dataweather-forecastaustraliaweatherweather-datameteorologywestern-australiaaustralia-bureau-of-meteorologywestern-australia-agricultureaustralia-agricultureaustralia-climateaustralia-weatherapi-clientclimatedatarainfallweather-api
1.5 match 32 stars 8.54 score 40 scripts
josue-rodriguez
psymetadata:Open Datasets from Meta-Analyses in Psychology Research
Data and examples from meta-analyses in psychology research.
Maintained by Josue E. Rodriguez. Last updated 2 years ago.
3.8 match 1 stars 3.40 score 50 scripts
dcousin3
superb:Summary Plots with Adjusted Error Bars
Computes standard error and confidence interval of various descriptive statistics under various designs and sampling schemes. The main function, superb(), return a plot. It can also be used to obtain a dataframe with the statistics and their precision intervals so that other plotting environments (e.g., Excel) can be used. See Cousineau and colleagues (2021) <doi:10.1177/25152459211035109> or Cousineau (2017) <doi:10.5709/acp-0214-z> for a review as well as Cousineau (2005) <doi:10.20982/tqmp.01.1.p042>, Morey (2008) <doi:10.20982/tqmp.04.2.p061>, Baguley (2012) <doi:10.3758/s13428-011-0123-7>, Cousineau & Laurencelle (2016) <doi:10.1037/met0000055>, Cousineau & O'Brien (2014) <doi:10.3758/s13428-013-0441-z>, Calderini & Harding <doi:10.20982/tqmp.15.1.p001> for specific references.
Maintained by Denis Cousineau. Last updated 2 months ago.
error-barsplottingstatisticssummary-plotssummary-statisticsvisualization
1.3 match 19 stars 9.55 score 155 scripts 2 dependents
dgerbing
lessR:Less Code, More Results
Each function replaces multiple standard R functions. For example, two function calls, Read() and CountAll(), generate summary statistics for all variables in the data frame, plus histograms and bar charts as appropriate. Other functions provide for summary statistics via pivot tables, a comprehensive regression analysis, ANOVA and t-test, visualizations including the Violin/Box/Scatter plot for a numerical variable, bar chart, histogram, box plot, density curves, calibrated power curve, reading multiple data formats with the same function call, variable labels, time series with aggregation and forecasting, color themes, and Trellis (facet) graphics. Also includes a confirmatory factor analysis of multiple indicator measurement models, pedagogical routines for data simulation such as for the Central Limit Theorem, generation and rendering of regression instructions for interpretative output, and interactive visualizations.
Maintained by David W. Gerbing. Last updated 11 hours ago.
1.7 match 6 stars 7.42 score 394 scripts 3 dependents
thinkr-open
fakir:Generate Fake Datasets for Prototyping and Teaching
Create fake datasets that can be used for prototyping and teaching. This package provides a set of functions to generate fake data for a variety of data types, such as dates, addresses, and names. It can be used for prototyping (notably in 'shiny') or as a tool to teach data manipulation and data visualization.
Maintained by Colin Fay. Last updated 7 months ago.
charlatanfake-datasetsgolemversehacktoberfest
2.0 match 133 stars 6.24 score 26 scriptsbioc
metaMS:MS-based metabolomics annotation pipeline
MS-based metabolomics data processing and compound annotation pipeline.
Maintained by Yann Guitton. Last updated 5 months ago.
immunooncologymassspectrometrymetabolomics
1.5 match 15 stars 7.50 score 15 scripts
jimbrig
lossrx:Actuarial Loss Development and Reserving with R
Actuarial Loss Development and Reserving Helper Functions and ShinyApp.
Maintained by Jimmy Briggs. Last updated 3 months ago.
actuarial-scienceclaims-dataclaims-reservingdata-scienceinsurancemodellingproperty-casualtyreservingrshinyworkflow
1.9 match 14 stars 5.89 score 7 scripts
coolbutuseless
tickle:Easily Build Tcl/Tk UIs
Wrap tcltk to make GUI creation easier.
Maintained by mikefc. Last updated 3 years ago.
1.9 match 125 stars 5.88 score 11 scripts
promerpr
scanstatistics:Space-Time Anomaly Detection using Scan Statistics
Detection of anomalous space-time clusters using the scan statistics methodology. Focuses on prospective surveillance of data streams, scanning for clusters with ongoing anomalies. Hypothesis testing is made possible by Monte Carlo simulation. Allévius (2018) <doi:10.21105/joss.00515>.
Maintained by Paul Romer Present. Last updated 2 years ago.
2.2 match 1 stars 4.81 score 43 scriptsthinkr-open
fcuk:The Ultimate Helper for Clumsy Fingers
Automatically suggests a correction when a typo occurs.
Maintained by Vincent Guyader. Last updated 1 years ago.
1.5 match 92 stars 7.05 score 49 scripts
dami82
easyPubMed:Search and Retrieve Scientific Publication Records from PubMed
Query NCBI Entrez and retrieve PubMed records in XML or text format. Process PubMed records by extracting and aggregating data from selected fields. A large number of records can be easily downloaded via this simple-to-use interface to the NCBI PubMed API.
Maintained by Damiano Fantini. Last updated 1 years ago.
1.3 match 21 stars 7.83 score 178 scripts 4 dependents
cjendres1
nhanesA:NHANES Data Retrieval
Utility to retrieve data from the National Health and Nutrition Examination Survey (NHANES) website <https://www.cdc.gov/nchs/nhanes/>.
Maintained by Christopher Endres. Last updated 2 months ago.
1.1 match 59 stars 9.37 score 239 scripts
jsocolar
flocker:Flexible Occupancy Estimation with Stan
Fit occupancy models in 'Stan' via 'brms'. The full variety of 'brms' formula-based effects structures are available to use in multiple classes of occupancy model, including single-season models, models with data augmentation for never-observed species, dynamic (multiseason) models with explicit colonization and extinction processes, and dynamic models with autologistic occupancy dynamics. Formulas can be specified for all relevant distributional terms, including detection and one or more of occupancy, colonization, extinction, and autologistic depending on the model type. Several important forms of model post-processing are provided. References: Bürkner (2017) <doi:10.18637/jss.v080.i01>; Carpenter et al. (2017) <doi:10.18637/jss.v076.i01>; Socolar & Mills (2023) <doi:10.1101/2023.10.26.564080>.
Maintained by Jacob B. Socolar. Last updated 2 months ago.
1.5 match 30 stars 6.78 score 20 scripts
gegznav
spAddins:RStudio Add-ins to Format R Markdown files (RETIRED PACKAGE)
The development of `spAddins` ended in 2018 as the package retired in favor of packages `addins.rmd` and `addins.rs`. ... RStudio Add-ins to Format Text and Insert Operators ... A set of RStudio addins that are designed to be used in combination with user-defined RStudio keyboard shortcuts. These addins either: 1) insert text at a cursor position (e.g. insert operators %>%, <<-, %$%, etc.), 2) replace symbols in selected pieces of text (e.g., convert backslashes to forward slashes which results in stings like "c:\data\" converted into "c:/data/") or 3) enclose text with special symbols (e.g., converts "bold" into "**bold**") which is convenient for editing R Markdown files.
Maintained by Vilmantas Gegzna. Last updated 4 years ago.
2.2 match 8 stars 4.60 score 8 scriptsbioc
sevenbridges:Seven Bridges Platform API Client and Common Workflow Language Tool Builder in R
R client and utilities for Seven Bridges platform API, from Cancer Genomics Cloud to other Seven Bridges supported platforms.
Maintained by Phil Webster. Last updated 5 months ago.
softwaredataimportthirdpartyclientapi-clientbioconductorbioinformaticscloudcommon-workflow-languagesevenbridges
1.3 match 35 stars 7.40 score 24 scripts
gianmarco-v
SIRE:Finding Feedback Effects in SEM and Testing for Their Significance
Provides two main functionalities. 1 - Given a system of simultaneous equation, it decomposes the matrix of coefficients weighting the endogenous variables into three submatrices: one includes the subset of coefficients that have a causal nature in the model, two include the subset of coefficients that have a interdependent nature in the model, either at systematic level or induced by the correlation between error terms. 2 - Given a decomposed model, it tests for the significance of the interdependent relationships acting in the system, via Maximum likelihood and Wald test, which can be built starting from the function output. For theoretical reference see Faliva (1992) <doi:10.1007/BF02589085> and Faliva and Zoia (1994) <doi:10.1007/BF02589041>.
Maintained by Gianmarco Vacca. Last updated 6 years ago.
4.7 match 2.00 score 5 scripts
tuncerkerem
experimentr:Datasets Used in Social Science Experiments: A Hands-on Introduction
Contains all the datasets that were used in Social Science Experiments: A Hands-On Introduction and in its R Companion. Relevant materials can be found at <https://osf.io/b78je>.
Maintained by Kerem Tuncer. Last updated 3 years ago.
3.4 match 2.70 score 8 scripts
dwinter
pafr:Read, Manipulate and Visualize 'Pairwise mApping Format' Data
Provides functions to read, process and visualize pairwise sequence alignments in the 'PAF' format used by 'minimap2' and other whole-genome aligners. 'minimap2' is described by Li H. (2018) <doi:10.1093/bioinformatics/bty191>.
Maintained by David Winter. Last updated 4 years ago.
1.3 match 71 stars 6.73 score 75 scripts
occupationmeasurement
occupationMeasurement:Interactively Measure Occupations in Interviews and Beyond
Perform interactive occupation coding during interviews as described in Peycheva, D., Sakshaug, J., Calderwood, L. (2021) <doi:10.2478/jos-2021-0042> and Schierholz, M., Gensicke, M., Tschersich, N., Kreuter, F. (2018) <doi:10.1111/rssa.12297>. Generate suggestions for occupational categories based on free text input, with pre-trained machine learning models in German and a ready-to-use shiny application provided for quick and easy data collection.
Maintained by Jan Simson. Last updated 7 months ago.
1.7 match 3 stars 5.18 score 17 scriptstimelyportfolio
parcoords:'Htmlwidget' for 'd3.js' Parallel Coordinates Chart
Create interactive parallel coordinates charts with this 'htmlwidget' wrapper for 'd3.js' <https://github.com/BigFatDog/parcoords-es> {'parallel-coordinates'}.
Maintained by Kenton Russell. Last updated 3 years ago.
1.5 match 77 stars 5.73 score 141 scripts
parklab
Nozzle.R1:Nozzle Reports
The Nozzle package provides an API to generate HTML reports with dynamic user interface elements based on JavaScript and CSS (Cascading Style Sheets). Nozzle was designed to facilitate summarization and rapid browsing of complex results in data analysis pipelines where multiple analyses are performed frequently on big data sets. The package can be applied to any project where user-friendly reports need to be created.
Maintained by Nils Gehlenborg. Last updated 10 years ago.
gehlenborglabhtml-reportreproducible-research
1.6 match 68 stars 5.31 score 10 scripts 2 dependents
hrbrmstr
statebins:Create United States Uniform Cartogram Heatmaps
The cartogram heatmaps generated by the included methods are an alternative to choropleth maps for the United States and are based on work by the Washington Post graphics department in their report on "The states most threatened by trade" (<http://www.washingtonpost.com/wp-srv/special/business/states-most-threatened-by-trade/>). "State bins" preserve as much of the geographic placement of the states as possible but have the look and feel of a traditional heatmap. Functions are provided that allow for use of a binned, discrete scale, a continuous scale or manually specified colors depending on what is needed for the underlying data.
Maintained by Bob Rudis. Last updated 5 years ago.
1.5 match 5.42 score 354 scripts 5 dependents
changwoolim
emailjsr:'emailjs' Support for R
Use 'emailjs' API easily in R. This package is not official. <https://www.emailjs.com/docs/rest-api/send/>.
Maintained by Changwoo Lim. Last updated 2 years ago.
2.2 match 3.74 score 11 scripts
hiweller
countcolors:Locates and Counts Pixels Within Color Range(s) in Images
Counts colors within color range(s) in images, and provides a masked version of the image with targeted pixels changed to a different color. Output includes the locations of the pixels in the images, and the proportion of the image within the target color range with optional background masking. Users can specify multiple color ranges for masking.
Maintained by Hannah Weller. Last updated 5 years ago.
1.5 match 10 stars 5.34 score 22 scripts
annechao
iNEXT.beta3D:Interpolation and Extrapolation with Beta Diversity for Three Dimensions of Biodiversity
As a sequel to 'iNEXT', the 'iNEXT.beta3D' package provides functions to compute standardized taxonomic, phylogenetic, and functional diversity (3D) estimates with a common sample size (for alpha and gamma diversity) or sample coverage (for alpha, beta, gamma diversity as well as dissimilarity or turnover indices). Hill numbers and their generalizations are used to quantify 3D and to make multiplicative decomposition (gamma = alpha x beta). The package also features size- and coverage-based rarefaction and extrapolation sampling curves to facilitate rigorous comparison of beta diversity across datasets. See Chao et al. (2023) <doi:10.1002/ecm.1588> for more details.
Maintained by Anne Chao. Last updated 4 months ago.
1.5 match 5.30 score 6 scripts
sbg
sevenbridges2:The 'Seven Bridges Platform' API Client
R client and utilities for 'Seven Bridges Platform' API, from 'Cancer Genomics Cloud' to other 'Seven Bridges' supported platforms. API documentation is hosted publicly at <https://docs.sevenbridges.com/docs/the-api>.
Maintained by Marko Trifunovic. Last updated 20 days ago.
api-clientbioinformaticscloudsevenbridges
1.3 match 2 stars 5.90 score 4 scriptsropensci
SymbiotaR2:Downloading Data from Symbiota2 Portals into R
Download data from Symbiota2 portals using Symbiota's API. Covers the Checklists, Collections, Crowdsource, Exsiccati, Glossary, ImageProcessor, Key, Media, Occurrence, Reference, Taxa, Traits, and UserRoles API families. Each Symbiota2 portal owner can load their own plugins (and modified code), and so this package may not cover every possible API endpoint from a given Symbiota2 instance.
Maintained by Austin Koontz. Last updated 3 years ago.
databaselibraryspecimen-recordssymbiotasymbiota2symbiota2-portal
2.3 match 2 stars 3.30 score 4 scripts
markheckmann
gridsampler:A Simulation Tool to Determine the Required Sample Size for Repertory Grid Studies
Simulation tool to facilitate determination of required sample size to achieve category saturation for studies using multiple repertory grids in conjunction with content analysis.
Maintained by Mark Heckmann. Last updated 5 years ago.
1.5 match 4 stars 5.10 score 21 scriptsbioc
PolySTest:PolySTest: Detection of differentially regulated features. Combined statistical testing for data with few replicates and missing values
The complexity of high-throughput quantitative omics experiments often leads to low replicates numbers and many missing values. We implemented a new test to simultaneously consider missing values and quantitative changes, which we combined with well-performing statistical tests for high confidence detection of differentially regulated features. The package contains functions to run the test and to visualize the results.
Maintained by Veit Schwämmle. Last updated 4 months ago.
massspectrometryproteomicssoftwaredifferentialexpression
1.5 match 4.95 score 12 scripts
ouhscbbmc
codified:Produce Standard/Formalized Demographics Tables
Augment clinical data with metadata to create output used in conventional publications and reports.
Maintained by Will Beasley. Last updated 1 years ago.
1.5 match 3 stars 4.22 score 11 scripts
elbersb
tidylog:Logging for 'dplyr' and 'tidyr' Functions
Provides feedback about 'dplyr' and 'tidyr' operations.
Maintained by Benjamin Elbers. Last updated 9 months ago.
dplyrtidyrtidyversewrapper-functions
0.6 match 593 stars 10.23 score 1.7k scripts
epiforecasts
EpiNow2:Estimate Real-Time Case Counts and Time-Varying Epidemiological Parameters
Estimates the time-varying reproduction number, rate of spread, and doubling time using a range of open-source tools (Abbott et al. (2020) <doi:10.12688/wellcomeopenres.16006.1>), and current best practices (Gostic et al. (2020) <doi:10.1101/2020.06.18.20134858>). It aims to help users avoid some of the limitations of naive implementations in a framework that is informed by community feedback and is actively supported.
Maintained by Sebastian Funk. Last updated 26 days ago.
backcalculationcovid-19gaussian-processesopen-sourcereproduction-numberstancpp
0.5 match 120 stars 11.88 score 210 scriptsjimbrig
jimstools:Tools for R
What the package does (one paragraph).
Maintained by Jimmy Briggs. Last updated 3 years ago.
1.9 match 2 stars 3.00 score 2 scripts
omarashkar
GIFTr:GIFT Questions Format Generator from Dataframes
A framework and functions to create 'MOODLE' quizzes. 'GIFTr' takes dataframe of questions of four types: multiple choices, numerical, true or false and short answer questions, and exports a text file formatted in 'MOODLE' GIFT format. You can prepare a spreadsheet in any software and import it into R to generate any number of questions with 'HTML', 'markdown' and 'LaTeX' support.
Maintained by Omar I. Elashkar. Last updated 5 years ago.
1.5 match 1 stars 3.70 score 3 scripts
r-forge
randtoolbox:Toolbox for Pseudo and Quasi Random Number Generation and Random Generator Tests
Provides (1) pseudo random generators - general linear congruential generators, multiple recursive generators and generalized feedback shift register (SF-Mersenne Twister algorithm (<doi:10.1007/978-3-540-74496-2_36>) and WELL (<doi:10.1145/1132973.1132974>) generators); (2) quasi random generators - the Torus algorithm, the Sobol sequence, the Halton sequence (including the Van der Corput sequence) and (3) some generator tests - the gap test, the serial test, the poker test, see, e.g., Gentle (2003) <doi:10.1007/b97336>. Take a look at the Distribution task view of types and tests of random number generators. The package can be provided without the 'rngWELL' dependency on demand. Package in Memoriam of Diethelm and Barbara Wuertz.
Maintained by Christophe Dutang. Last updated 3 months ago.
0.5 match 1 stars 10.23 score 578 scripts 80 dependents
cezarykuran
oaii:'OpenAI' API R Interface
A comprehensive set of helpers that streamline data transmission and processing, making it effortless to interact with the 'OpenAI' API.
Maintained by Cezary Kuran. Last updated 1 years ago.
5.1 match 1.00 score 1 scripts
rstudio
shinyvalidate:Input Validation for Shiny Apps
Improves the user experience of Shiny apps by helping to provide feedback when required inputs are missing, or input values are not valid.
Maintained by Carson Sievert. Last updated 1 years ago.
0.5 match 112 stars 9.10 score 316 scripts 13 dependentsjimbrig
templateeR:Collection of templates for R
Apply variouse R related templates.
Maintained by Jimmy Briggs. Last updated 3 years ago.
1.9 match 2 stars 2.11 score 13 scriptsdavid-cortes
cmfrec:Collective Matrix Factorization for Recommender Systems
Collective matrix factorization (a.k.a. multi-view or multi-way factorization, Singh, Gordon, (2008) <doi:10.1145/1401890.1401969>) tries to approximate a (potentially very sparse or having many missing values) matrix 'X' as the product of two low-dimensional matrices, optionally aided with secondary information matrices about rows and/or columns of 'X', which are also factorized using the same latent components. The intended usage is for recommender systems, dimensionality reduction, and missing value imputation. Implements extensions of the original model (Cortes, (2018) <arXiv:1809.00366>) and can produce different factorizations such as the weighted 'implicit-feedback' model (Hu, Koren, Volinsky, (2008) <doi:10.1109/ICDM.2008.22>), the 'weighted-lambda-regularization' model, (Zhou, Wilkinson, Schreiber, Pan, (2008) <doi:10.1007/978-3-540-68880-8_32>), or the enhanced model with 'implicit features' (Rendle, Zhang, Koren, (2019) <arXiv:1905.01395>), with or without side information. Can use gradient-based procedures or alternating-least squares procedures (Koren, Bell, Volinsky, (2009) <doi:10.1109/MC.2009.263>), with either a Cholesky solver, a faster conjugate gradient solver (Takacs, Pilaszy, Tikk, (2011) <doi:10.1145/2043932.2043987>), or a non-negative coordinate descent solver (Franc, Hlavac, Navara, (2005) <doi:10.1007/11556121_50>), providing efficient methods for sparse and dense data, and mixtures thereof. Supports L1 and L2 regularization in the main models, offers alternative most-popular and content-based models, and implements functionality for cold-start recommendations and imputation of 2D data.
Maintained by David Cortes. Last updated 2 months ago.
cold-startcollaborative-filteringcollective-matrix-factorizationopenblasopenmp
0.5 match 120 stars 6.84 score 23 scripts
tjarkvandemerwe
tidyprompt:Prompt Large Language Models and Enhance Their Functionality
Easily construct prompts and associated logic for interacting with large language models (LLMs). 'tidyprompt' introduces the concept of prompt wraps, which are building blocks that you can use to quickly turn a simple prompt into a complex one. Prompt wraps do not just modify the prompt text, but also add extraction and validation functions that will be applied to the response of the LLM. This ensures that the user gets the desired output. 'tidyprompt' can add various features to prompts and their evaluation by LLMs, such as structured output, automatic feedback, retries, reasoning modes, autonomous R function calling, and R code generation and evaluation. It is designed to be compatible with any LLM provider that offers chat completion.
Maintained by Luka Koning. Last updated 1 months ago.
0.5 match 16 stars 6.56 score 9 scripts
seankross
swirl:Learn R, in R
Use the R console as an interactive learning environment. Users receive immediate feedback as they are guided through self-paced lessons in data science and R programming.
Maintained by Sean Kross. Last updated 5 years ago.
0.5 match 5.73 score 1.8k scripts 1 dependents
cran
ggBubbles:Mini Bubble Plots for Comparison of Discrete Data with 'ggplot2'
When comparing discrete data mini bubble plots allow displaying more information than traditional bubble plots via colour, shape or labels. Exact overlapping coordinates will be transformed so they surround the original point circularly without overlapping. This is implemented as a position_surround() function for 'ggplot2'.
Maintained by Thomas Schwarzl. Last updated 6 years ago.
1.5 match 2.00 score
pauljohn32
kutils:Project Management Tools
Tools for data importation, recoding, and inspection. There are functions to create new project folders, R code templates, create uniquely named output directories, and to quickly obtain a visual summary for each variable in a data frame. The main feature here is the systematic implementation of the "variable key" framework for data importation and recoding. We are eager to have community feedback about the variable key and the vignette about it. In version 1.7, the function 'semTable' is removed. It was deprecated since 1.67. That is provided in a separate package, 'semTable'.
Maintained by Paul Johnson. Last updated 1 years ago.
0.5 match 5.85 score 110 scripts 20 dependents
shahronak47
shinyRatings:An Intuitive Way of Providing Star Rating in a 'shiny' App
A simple interface to integrate star ratings into your 'shiny' apps. It can be used for customer feedback systems, user reviews, or any application that requires user ratings. 'shinyRatings' offers a straightforward and customisable solution that enhances user engagement and facilitates valuable feedback collection.
Maintained by Ronak Shah. Last updated 1 years ago.
0.8 match 8 stars 3.60 score 8 scripts
jgrembi
riskCommunicator:G-Computation to Estimate Interpretable Epidemiological Effects
Estimates flexible epidemiological effect measures including both differences and ratios using the parametric G-formula developed as an alternative to inverse probability weighting. It is useful for estimating the impact of interventions in the presence of treatment-confounder-feedback. G-computation was originally described by Robbins (1986) <doi:10.1016/0270-0255(86)90088-6> and has been described in detail by Ahern, Hubbard, and Galea (2009) <doi:10.1093/aje/kwp015>; Snowden, Rose, and Mortimer (2011) <doi:10.1093/aje/kwq472>; and Westreich et al. (2012) <doi:10.1002/sim.5316>.
Maintained by Jessica Grembi. Last updated 2 years ago.
0.5 match 4 stars 4.86 score 18 scripts
theeliteanalyst
Riex:IEX Stocks and Market Data
Retrieves efficiently and reliably Investors Exchange ('IEX') stock and market data using 'IEX Cloud API'. The platform is offered by Investors Exchange Group (IEX Group). Main goal is to leverage 'R' capabilities including existing packages to effectively provide financial and statistical analysis as well as visualization in support of fact-based decisions. In addition, continuously improve and enhance 'Riex' by applying best practices and being in tune with users' feedback and requirements. Please, make sure to review and acknowledge Investors Exchange Group (IEX Group) terms and conditions before using 'Riex' (<https://iexcloud.io/terms/>).
Maintained by Myriam Ibrahim. Last updated 4 years ago.
financefinancial-analysisfinancial-dataiexiex-apiiexcloud
0.5 match 9 stars 4.69 score 11 scripts
singator
autoharp:Semi-Automatic Grading of R and Rmd Scripts
A customisable set of tools for assessing and grading R or R-markdown scripts from students. It allows for checking correctness of code output, runtime statistics and static code analysis. The latter feature is made possible by representing R expressions using a tree structure.
Maintained by Vik Gopal. Last updated 3 years ago.
1.8 match 1 stars 1.00 score 8 scripts
benrwoodard
cjar:R Client for 'Customer Journey Analytics' ('CJA') API
Connect and pull data from the 'CJA' API, which powers 'CJA Workspace' <https://github.com/AdobeDocs/cja-apis>. The package was developed with the analyst in mind and will continue to be developed with the guiding principles of iterative, repeatable, timely analysis. New features are actively being developed and we value your feedback and contribution to the process.
Maintained by Ben Woodard. Last updated 2 months ago.
0.5 match 2 stars 3.30 score 5 scripts
talegari
slimrec:Sparse Linear Method to Predict Ratings and Top-N Recommendations
Sparse Linear Method(SLIM) predicts ratings and top-n recommendations suited for sparse implicit positive feedback systems. SLIM is decomposed into multiple elasticnet optimization problems which are solved in parallel over multiple cores. The package is based on "SLIM: Sparse Linear Methods for Top-N Recommender Systems" by Xia Ning and George Karypis <doi:10.1109/ICDM.2011.134>.
Maintained by Srikanth KS. Last updated 8 years ago.
0.5 match 3 stars 3.18 score 6 scriptscran
rockx:Easily Import Data from Your 'ODK-X Sync Endpoint'
Provides helper functions for authenticating and retrieving data from your 'ODK-X Sync Endpoint'. This is an early release intended for testing and feedback.
Maintained by Emil Rossing. Last updated 25 days ago.
0.5 match 3.00 scorecran
WayFindR:Computing Graph Structures on WikiPathways
Converts pathways from 'WikiPathways' GPML format into 'igraph' objects. Includes tools to find all cycles in the resulting graphs and determine which ones involve negative feedback (inhibition).
Maintained by Kevin R. Coombes. Last updated 11 months ago.
0.5 match 2.30 score
andriyprotsak5
UAHDataScienceSF:Interactive Statistical Learning Functions
An educational toolkit for learning statistical concepts through interactive exploration. Provides functions for basic statistics (mean, variance, etc.) and probability distributions with step-by-step explanations and interactive learning modes. Each function can be used for simple calculations, detailed learning with explanations, or interactive practice with feedback.
Maintained by Andriy Protsak Protsak. Last updated 28 days ago.
0.5 match 2.30 scorecran
UAHDataScienceSF:Interactive Statistical Learning Functions
An educational toolkit for learning statistical concepts through interactive exploration. Provides functions for basic statistics (mean, variance, etc.) and probability distributions with step-by-step explanations and interactive learning modes. Each function can be used for simple calculations, detailed learning with explanations, or interactive practice with feedback.
Maintained by Andriy Protsak Protsak. Last updated 27 days ago.
0.5 match 2.00 score
