R-universe search: needs:writexl

gesistsa

rio:A Swiss-Army Knife for Data I/O

Streamlined data import and export by making assumptions that the user is probably willing to make: 'import()' and 'export()' determine the data format from the file extension, reasonable defaults are used for data import and export, web-based import is natively supported (including from SSL/HTTPS), compressed files can be read directly, and fast import packages are used where appropriate. An additional convenience function, 'convert()', provides a simple method for converting between file types.

Maintained by Chung-hong Chan. Last updated 3 months ago.

csv csvy data data-science excel io rio sas spss stata

610 stars 17.10 score 7.8k scripts 74 dependents

dreamrs

esquisse:Explore and Visualize Your Data Interactively

A 'shiny' gadget to create 'ggplot2' figures interactively with drag-and-drop to map your variables to different aesthetics. You can quickly visualize your data accordingly to their type, export in various formats, and retrieve the code to reproduce the plot.

Maintained by Victor Perrier. Last updated 1 months ago.

addin data-visualization ggplot2 rstudio-addin visualization

1.8k stars 13.31 score 1.1k scripts 1 dependents

dreamrs

datamods:Modules to Import and Manipulate Data in 'Shiny'

'Shiny' modules to import data into an application or 'addin' from various sources, and to manipulate them after that.

Maintained by Victor Perrier. Last updated 24 days ago.

shiny shiny-modules

144 stars 12.03 score 174 scripts 7 dependents

fmmattioni

downloadthis:Implement Download Buttons in 'rmarkdown'

Implement download buttons in HTML output from 'rmarkdown' without the need for 'runtime:shiny'.

Maintained by Felipe Mattioni Maturana. Last updated 6 months ago.

146 stars 9.63 score 856 scripts 1 dependents

pik-piam

remind2:The REMIND R package (2nd generation)

Contains the REMIND-specific routines for data and model output manipulation.

Maintained by Renato Rodrigues. Last updated 14 hours ago.

8.87 score 161 scripts 5 dependents

r-box

boxr:Interface for the 'Box.com API'

An R interface for the remote file hosting service 'Box' (<https://www.box.com/>). In addition to uploading and downloading files, this package includes functions which mirror base R operations for local files, (e.g. box_load(), box_save(), box_read(), box_setwd(), etc.), as well as 'git' style functions for entire directories (e.g. box_fetch(), box_push()).

Maintained by Ian Lyttle. Last updated 12 months ago.

63 stars 8.65 score 238 scripts

isubirana

compareGroups:Descriptive Analysis by Groups

Create data summaries for quality control, extensive reports for exploring data, as well as publication-ready univariate or bivariate tables in several formats (plain text, HTML,LaTeX, PDF, Word or Excel. Create figures to quickly visualise the distribution of your data (boxplots, barplots, normality-plots, etc.). Display statistics (mean, median, frequencies, incidences, etc.). Perform the appropriate tests (t-test, Analysis of variance, Kruskal-Wallis, Fisher, log-rank, ...) depending on the nature of the described variable (normal, non-normal or qualitative). Summarize genetic data (Single Nucleotide Polymorphisms) data displaying Allele Frequencies and performing Hardy-Weinberg Equilibrium tests among other typical statistics and tests for these kind of data.

Maintained by Isaac Subirana. Last updated 1 months ago.

comparegroups descriptive-statistics plot report table

36 stars 8.46 score 396 scripts 1 dependents

pik-piam

quitte:Bits and pieces of code to use with quitte-style data frames

A collection of functions for easily dealing with quitte-style data frames, doing multi-model comparisons and plots.

Maintained by Falk Benke. Last updated 4 days ago.

8.26 score 184 scripts 35 dependents

radiant-rstats

radiant.data:Data Menu for Radiant: Business Analytics using R and Shiny

The Radiant Data menu includes interfaces for loading, saving, viewing, visualizing, summarizing, transforming, and combining data. It also contains functionality to generate reproducible reports of the analyses conducted in the application.

Maintained by Vincent Nijs. Last updated 5 months ago.

53 stars 8.25 score 146 scripts 6 dependents

safetygraphics

safetyGraphics:Interactive Graphics for Monitoring Clinical Trial Safety

A framework for evaluation of clinical trial safety. Users can interactively explore their data using the included 'Shiny' application.

Maintained by Jeremy Wildfire. Last updated 2 years ago.

99 stars 8.19 score 111 scripts

ramiromagno

gwasrapidd:'REST' 'API' Client for the 'NHGRI'-'EBI' 'GWAS' Catalog

'GWAS' R 'API' Data Download. This package provides easy access to the 'NHGRI'-'EBI' 'GWAS' Catalog data by accessing the 'REST' 'API' <https://www.ebi.ac.uk/gwas/rest/docs/api/>.

Maintained by Ramiro Magno. Last updated 1 years ago.

thirdpartyclient biomedicalinformatics genomewideassociation snp association-studies gwas-catalog human rest-client trait trait-ontology

95 stars 8.10 score 49 scripts 1 dependents

pik-piam

mip:Comparison of multi-model runs

Package contains generic functions to produce comparison plots of multi-model runs.

Maintained by David Klein. Last updated 4 days ago.

1 stars 8.07 score 70 scripts 21 dependents

radiant-rstats

radiant:Business Analytics using R and Shiny

A platform-independent browser-based interface for business analytics in R, based on the shiny package. The application combines the functionality of 'radiant.data', 'radiant.design', 'radiant.basics', 'radiant.model', and 'radiant.multivariate'.

Maintained by Vincent Nijs. Last updated 10 months ago.

460 stars 8.02 score 228 scripts

john-harrold

formods:'Shiny' Modules for General Tasks

'Shiny' apps can often make use of the same key elements, this package provides modules for common tasks (data upload, wrangling data, figure generation and saving the app state), and also a framework for developing. These modules can react and interact as well as generate code to create reproducible analyses.

Maintained by John Harrold. Last updated 19 days ago.

8 stars 7.94 score 100 scripts 1 dependents

pik-piam

magpie4:MAgPIE outputs R package for MAgPIE version 4.x

Common output routines for extracting results from the MAgPIE framework (versions 4.x).

Maintained by Benjamin Leon Bodirsky. Last updated 15 hours ago.

2 stars 7.89 score 254 scripts 9 dependents

psychbruce

bruceR:Broadly Useful Convenient and Efficient R Functions

Broadly useful convenient and efficient R functions that bring users concise and elegant R data analyses. This package includes easy-to-use functions for (1) basic R programming (e.g., set working directory to the path of currently opened file; import/export data from/to files in any format; print tables to Microsoft Word); (2) multivariate computation (e.g., compute scale sums/means/... with reverse scoring); (3) reliability analyses and factor analyses; (4) descriptive statistics and correlation analyses; (5) t-test, multi-factor analysis of variance (ANOVA), simple-effect analysis, and post-hoc multiple comparison; (6) tidy report of statistical models (to R Console and Microsoft Word); (7) mediation and moderation analyses (PROCESS); and (8) additional toolbox for statistics and graphics.

Maintained by Han-Wu-Shuang Bao. Last updated 10 months ago.

anova data-analysis data-science linear-models linear-regression multilevel-models statistics toolbox

176 stars 7.87 score 316 scripts 3 dependents

joachim-gassen

ExPanDaR:Explore Your Data Interactively

Provides a shiny-based front end (the 'ExPanD' app) and a set of functions for exploratory data analysis. Run as a web-based app, 'ExPanD' enables users to assess the robustness of empirical evidence without providing them access to the underlying data. You can export a notebook containing the analysis of 'ExPanD' and/or use the functions of the package to support your exploratory data analysis workflow. Refer to the vignettes of the package for more information on how to use 'ExPanD' and/or the functions of this package.

Maintained by Joachim Gassen. Last updated 4 years ago.

accounting eda exploratory-data-analysis finance open-science replication shiny shiny-apps

156 stars 7.80 score 203 scripts

mrc-ide

naomi:Naomi Model for Subnational HIV Estimates

This package implements the Naomi model for subnational HIV estimates.

Maintained by Jeff Eaton. Last updated 18 days ago.

cpp

9 stars 7.74 score 54 scripts 2 dependents

bioc

EpiCompare:Comparison, Benchmarking & QC of Epigenomic Datasets

EpiCompare is used to compare and analyse epigenetic datasets for quality control and benchmarking purposes. The package outputs an HTML report consisting of three sections: (1. General metrics) Metrics on peaks (percentage of blacklisted and non-standard peaks, and peak widths) and fragments (duplication rate) of samples, (2. Peak overlap) Percentage and statistical significance of overlapping and non-overlapping peaks. Also includes upset plot and (3. Functional annotation) functional annotation (ChromHMM, ChIPseeker and enrichment analysis) of peaks. Also includes peak enrichment around TSS.

Maintained by Hiranyamaya Dash. Last updated 1 months ago.

epigenetics genetics qualitycontrol chipseq multiplecomparison functionalgenomics atacseq dnaseseq benchmark benchmarking bioconductor bioconductor-package comparison html interactive-reporting

15 stars 7.49 score 46 scripts

cardiomoon

editData:'RStudio' Addin for Editing a 'data.frame'

An 'RStudio' addin for editing a 'data.frame' or a 'tibble'. You can delete, add or update a 'data.frame' without coding. You can get resultant data as a 'data.frame'. In the package, modularized 'shiny' app codes are provided. These modules are intended for reuse across applications.

Maintained by Keon-Woong Moon. Last updated 4 years ago.

32 stars 7.45 score 63 scripts 5 dependents

bioc

gDRimport:Package for handling the import of dose-response data

The package is a part of the gDR suite. It helps to prepare raw drug response data for downstream processing. It mainly contains helper functions for importing/loading/validating dose-response data provided in different file formats.

Maintained by Arkadiusz Gladki. Last updated 9 days ago.

software infrastructure dataimport

3 stars 7.29 score 5 scripts 1 dependents

spsanderson

healthyR:Hospital Data Analysis Workflow Tools

Hospital data analysis workflow tools, modeling, and automations. This library provides many useful tools to review common administrative hospital data. Some of these include average length of stay, readmission rates, average net pay amounts by service lines just to name a few. The aim is to provide a simple and consistent verb framework that takes the guesswork out of everything.

Maintained by Steven Sanderson. Last updated 9 months ago.

analysis analytics healthcare healthyr

30 stars 7.27 score 103 scripts 1 dependents

ardata-fr

mschart:Chart Generation for 'Microsoft Word' and 'Microsoft PowerPoint' Documents

Create native charts for 'Microsoft PowerPoint' and 'Microsoft Word' documents. These can then be edited and annotated. Functions are provided to let users create charts, modify and format their content. The chart's underlying data is automatically saved within the 'Word' document or 'PowerPoint' presentation. It extends package 'officer' that does not contain any feature for 'Microsoft' native charts production.

Maintained by David Gohel. Last updated 11 months ago.

ms-office-documents office powerpoint word

133 stars 7.23 score 108 scripts 1 dependents

bioc

CRISPRseek:Design of guide RNAs in CRISPR genome-editing systems

The package encompasses functions to find potential guide RNAs for the CRISPR-based genome-editing systems including the Base Editors and the Prime Editors when supplied with target sequences as input. Users have the flexibility to filter resulting guide RNAs based on parameters such as the absence of restriction enzyme cut sites or the lack of paired guide RNAs. The package also facilitates genome-wide exploration for off-targets, offering features to score and rank off-targets, retrieve flanking sequences, and indicate whether the hits are located within exon regions. All detected guide RNAs are annotated with the cumulative scores of the top5 and topN off-targets together with the detailed information such as mismatch sites and restrictuion enzyme cut sites. The package also outputs INDELs and their frequencies for Cas9 targeted sites.

Maintained by Lihua Julie Zhu. Last updated 18 days ago.

immunooncology generegulation sequencematching crispr

7.18 score 51 scripts 2 dependents

john-harrold

ruminate:A Pharmacometrics Data Transformation and Analysis Tool

Exploration of pharmacometrics data involves both general tools (transformation and plotting) and specific techniques (non-compartmental analysis). This kind of exploration is generally accomplished by utilizing different packages. The purpose of 'ruminate' is to create a 'shiny' interface to make these tools more broadly available while creating reproducible results.

Maintained by John Harrold. Last updated 19 days ago.

2 stars 7.06 score 84 scripts

cb4ds

periscope:Enterprise Streamlined 'Shiny' Application Framework

An enterprise-targeted scalable and UI-standardized 'shiny' framework including a variety of developer convenience functions with the goal of both streamlining robust application development while assisting with creating a consistent user experience regardless of application or developer.

Maintained by Constance Brett. Last updated 2 months ago.

18 stars 7.02 score 73 scripts

pik-piam

edgeTransport:Prepare EDGE Transport Data for the REMIND model

EDGE-T is a fork of the GCAM transport module https://jgcri.github.io/gcam-doc/energy.html#transportation with a high level of detail in its representation of technological and modal options. It is a partial equilibrium model with a nested multinomial logit structure and relies on the modified logit formulation. Most of the sources are not publicly available. PIK-internal users can find the sources in the distributed file system in the folder `/p/projects/rd3mod/inputdata/sources/EDGE-Transport-Standalone`.

Maintained by Johanna Hoppe. Last updated 3 hours ago.

5 stars 6.84 score 16 scripts 2 dependents

raymondbalise

rUM:R Templates from the University of Miami

This holds some r markdown and quarto templates and a template to create a research project in "R Studio".

Maintained by Raymond Balise. Last updated 7 days ago.

rmarkdown

9 stars 6.84 score 16 scripts

cardiomoon

webr:Data and Functions for Web-Based Analysis

Several analysis-related functions for the book entitled "Web-based Analysis without R in Your Computer"(written in Korean, ISBN 978-89-5566-185-9) by Keon-Woong Moon. The main function plot.htest() shows the distribution of statistic for the object of class 'htest'.

Maintained by Keon-Woong Moon. Last updated 5 years ago.

33 stars 6.80 score 181 scripts

r-forge

RHRV:Heart Rate Variability Analysis of ECG Data

Allows users to import data files containing heartbeat positions in the most broadly used formats, to remove outliers or points with unacceptable physiological values present in the time series, to plot HRV data, and to perform time domain, frequency domain and nonlinear HRV analysis. See Garcia et al. (2017) <DOI:10.1007/978-3-319-65355-6>.

Maintained by Leandro Rodriguez-Linares. Last updated 6 months ago.

6.79 score 63 scripts 1 dependents

dfe-analytical-services

shinyGovstyle:Custom Gov Style Inputs for Shiny

Collection of 'shiny' application styling that are the based on the GOV.UK Design System. See <https://design-system.service.gov.uk/components/> for details.

Maintained by Ross Wyatt. Last updated 5 days ago.

44 stars 6.77 score 25 scripts

harrison4192

autostats:Auto Stats

Automatically do statistical exploration. Create formulas using 'tidyselect' syntax, and then determine cross-validated model accuracy and variable contributions using 'glm' and 'xgboost'. Contains additional helper functions to create and modify formulas. Has a flagship function to quickly determine relationships between categorical and continuous variables in the data set.

Maintained by Harrison Tietze. Last updated 24 days ago.

6 stars 6.76 score 5 scripts 2 dependents

pik-piam

mrcommons:MadRat commons Input Data Library

Provides useful functions and a common structure to all the input data required to run models like MAgPIE and REMIND of model input data.

Maintained by Jan Philipp Dietrich. Last updated 14 hours ago.

1 stars 6.70 score 16 scripts 15 dependents

harrison4192

presenter:Present Data with Style

Consists of custom wrapper functions using packages 'openxlsx', 'flextable', and 'officer' to create highly formatted MS office friendly output of your data frames. These viewer friendly outputs are intended to match expectations of professional looking presentations in business and consulting scenarios. The functions are opinionated in the sense that they expect the input data frame to have certain properties in order to take advantage of the automated formatting.

Maintained by Harrison Tietze. Last updated 2 years ago.

excel powerpoint

11 stars 6.69 score 15 scripts 4 dependents

pik-piam

piamInterfaces:Project specific interfaces to REMIND / MAgPIE

Project specific interfaces to REMIND / MAgPIE.

Maintained by Falk Benke. Last updated 5 days ago.

6.64 score 38 scripts 7 dependents

loukiaspin

rnmamod:Bayesian Network Meta-Analysis with Missing Participants

A comprehensive suite of functions to perform and visualise pairwise and network meta-analysis with aggregate binary or continuous missing participant outcome data. The package covers core Bayesian one-stage models implemented in a systematic review with multiple interventions, including fixed-effect and random-effects network meta-analysis, meta-regression, evaluation of the consistency assumption via the node-splitting approach and the unrelated mean effects model (original and revised model proposed by Spineli, (2022) <doi:10.1177/0272989X211068005>), and sensitivity analysis (see Spineli et al., (2021) <doi:10.1186/s12916-021-02195-y>). Missing participant outcome data are addressed in all models of the package (see Spineli, (2019) <doi:10.1186/s12874-019-0731-y>, Spineli et al., (2019) <doi:10.1002/sim.8207>, Spineli, (2019) <doi:10.1016/j.jclinepi.2018.09.002>, and Spineli et al., (2021) <doi:10.1002/jrsm.1478>). The robustness to primary analysis results can also be investigated using a novel intuitive index (see Spineli et al., (2021) <doi:10.1177/0962280220983544>). Methods to evaluate the transitivity assumption quantitatively are provided (see Spineli, (2024) <doi:10.1186/s12874-024-02436-7>). A novel index to facilitate interpretation of local inconsistency is also available (see Spineli, (2024) <doi:0.1186/s13643-024-02680-4>) The package also offers a rich, user-friendly visualisation toolkit that aids in appraising and interpreting the results thoroughly and preparing the manuscript for journal submission. The visualisation tools comprise the network plot, forest plots, panel of diagnostic plots, heatmaps on the extent of missing participant outcome data in the network, league heatmaps on estimation and prediction, rankograms, Bland-Altman plot, leverage plot, deviance scatterplot, heatmap of robustness, barplot of Kullback-Leibler divergence, heatmap of comparison dissimilarities and dendrogram of comparison clustering. The package also allows the user to export the results to an Excel file at the working directory.

Maintained by Loukia Spineli. Last updated 22 days ago.

jags cpp

5 stars 6.64 score 12 scripts

aggregate-genius

periscope2:Enterprise Streamlined 'shiny' Application Framework Using 'bs4Dash'

A framework for building enterprise, scalable and UI-standardized 'shiny' applications. It brings enhanced features such as 'bootstrap' v4 <https://getbootstrap.com/docs/4.0/getting-started/introduction/>, additional and enhanced 'shiny' modules, customizable UI features, as well as an enhanced application file organization paradigm. This update allows developers to harness the ability to build powerful applications and enriches the 'shiny' developers' experience when building and maintaining applications.

Maintained by Mohammed Ali. Last updated 2 months ago.

periscope shiny

9 stars 6.49 score 34 scripts

cardiomoon

rrtable:Reproducible Research with a Table of R Codes

Makes documents containing plots and tables from a table of R codes. Can make "HTML", "pdf('LaTex')", "docx('MS Word')" and "pptx('MS Powerpoint')" documents with or without R code. In the package, modularized 'shiny' app codes are provided. These modules are intended for reuse across applications.

Maintained by Keon-Woong Moon. Last updated 2 years ago.

3 stars 6.45 score 76 scripts 2 dependents

pik-piam

mrwater:madrat based MAgPIE water Input Data Library

Provides functions for MAgPIE cellular input data generation and stand-alone water calculations.

Maintained by Felicitas Beier. Last updated 5 months ago.

6.45 score 4 scripts 3 dependents

msperlin

GetDFPData2:Reading Annual and Quarterly Financial Reports from B3

Reads annual and quarterly financial reports from companies traded at B3, the Brazilian exchange <https://www.b3.com.br/>. All data is downloaded and imported from CVM's public ftp site <https://dados.cvm.gov.br/dados/CIA_ABERTA/>.

Maintained by Marcelo Perlin. Last updated 4 days ago.

40 stars 6.36 score 38 scripts 1 dependents

nifu-no

saros:Semi-Automatic Reporting of Ordinary Surveys

Offers a systematic way for conditional reporting of figures and tables for many (and bivariate combinations of) variables, typically from survey data. Contains interactive 'ggiraph'-based (<https://CRAN.R-project.org/package=ggiraph>) plotting functions and data frame-based summary tables (bivariate significance tests, frequencies/proportions, unique open ended responses, etc) with many arguments for customization, and extensions possible. Uses a global options() system for neatly reducing redundant code. Also contains tools for immediate saving of objects and returning a hashed link to the object, useful for creating download links to high resolution images upon rendering in 'Quarto'. Suitable for highly customized reports, primarily intended for survey research.

Maintained by Stephan Daus. Last updated 1 months ago.

2 stars 6.32 score 20 scripts

pik-piam

mrremind:MadRat REMIND Input Data Package

The mrremind packages contains data preprocessing for the REMIND model.

Maintained by Lavinia Baumstark. Last updated 14 hours ago.

4 stars 6.25 score 15 scripts 1 dependents

radiant-rstats

radiant.model:Model Menu for Radiant: Business Analytics using R and Shiny

The Radiant Model menu includes interfaces for linear and logistic regression, naive Bayes, neural networks, classification and regression trees, model evaluation, collaborative filtering, decision analysis, and simulation. The application extends the functionality in 'radiant.data'.

Maintained by Vincent Nijs. Last updated 6 months ago.

19 stars 6.18 score 80 scripts 2 dependents

pik-piam

luplot:Landuse Plot Library

Some useful functions to plot data such as a map plot function for MAgPIE objects.

Maintained by Benjamin Bodirsky. Last updated 2 months ago.

6.09 score 124 scripts 11 dependents

cardiomoon

ggplotAssist:'RStudio' Addin for Teaching and Learning 'ggplot2'

An 'RStudio' addin for teaching and learning making plot using the 'ggplot2' package. You can learn each steps of making plot by clicking your mouse without coding. You can get resultant code for the plot.

Maintained by Keon-Woong Moon. Last updated 7 years ago.

79 stars 5.85 score 18 scripts

bioc

ISAnalytics:Analyze gene therapy vector insertion sites data identified from genomics next generation sequencing reads for clonal tracking studies

In gene therapy, stem cells are modified using viral vectors to deliver the therapeutic transgene and replace functional properties since the genetic modification is stable and inherited in all cell progeny. The retrieval and mapping of the sequences flanking the virus-host DNA junctions allows the identification of insertion sites (IS), essential for monitoring the evolution of genetically modified cells in vivo. A comprehensive toolkit for the analysis of IS is required to foster clonal trackign studies and supporting the assessment of safety and long term efficacy in vivo. This package is aimed at (1) supporting automation of IS workflow, (2) performing base and advance analysis for IS tracking (clonal abundance, clonal expansions and statistics for insertional mutagenesis, etc.), (3) providing basic biology insights of transduced stem cells in vivo.

Maintained by Francesco Gazzo. Last updated 4 months ago.

biomedicalinformatics sequencing singlecell

3 stars 5.83 score 15 scripts

mrc-ide

hintr:R API for calling naomi district level HIV model

R API for calling naomi district level HIV model.

Maintained by Robert Ashton. Last updated 18 days ago.

2 stars 5.80 score 2 scripts 1 dependents

bioc

RiboCrypt:Interactive visualization in genomics

R Package for interactive visualization and browsing NGS data. It contains a browser for both transcript and genomic coordinate view. In addition a QC and general metaplots are included, among others differential translation plots and gene expression plots. The package is still under development.

Maintained by Michal Swirski. Last updated 4 days ago.

software sequencing riboseq rnaseq

5 stars 5.78 score 22 scripts

bioc

bioCancer:Interactive Multi-Omics Cancers Data Visualization and Analysis

This package is a Shiny App to visualize and analyse interactively Multi-Assays of Cancer Genomic Data.

Maintained by Karim Mezhoud. Last updated 5 months ago.

gui datarepresentation network multiplecomparison pathways reactome visualization geneexpression genetarget analysis biocancer-interface cancer cancer-studies rmarkdown

20 stars 5.78 score 7 scripts

bioc

multicrispr:Multi-locus multi-purpose Crispr/Cas design

This package is for designing Crispr/Cas9 and Prime Editing experiments. It contains functions to (1) define and transform genomic targets, (2) find spacers (4) count offtarget (mis)matches, and (5) compute Doench2016/2014 targeting efficiency. Care has been taken for multicrispr to scale well towards large target sets, enabling the design of large Crispr/Cas9 libraries.

Maintained by Aditya Bhagwat. Last updated 4 months ago.

crispr software

5.65 score 2 scripts

pik-piam

mrland:MadRaT land data package

The package provides land related data via the madrat framework.

Maintained by Jan Philipp Dietrich. Last updated 9 days ago.

5.59 score 3 scripts 4 dependents

maelstrom-research

Rmonize:Support Retrospective Harmonization of Data

Functions to support rigorous retrospective data harmonization processing, evaluation, and documentation across datasets from different studies based on Maelstrom Research guidelines. The package includes the core functions to evaluate and format the main inputs that define the harmonization process, apply specified processing rules to generate harmonized data, diagnose processing errors, and summarize and evaluate harmonized outputs. The main inputs that define the processing are a DataSchema (list and definitions of harmonized variables to be generated) and Data Processing Elements (processing rules to be applied to generate harmonized variables from study-specific variables). The main outputs of processing are harmonized datasets, associated metadata, and tabular and visual summary reports. As described in Maelstrom Research guidelines for rigorous retrospective data harmonization (Fortier I and al. (2017) <doi:10.1093/ije/dyw075>).

Maintained by Guillaume Fabre. Last updated 1 years ago.

5 stars 5.58 score 51 scripts

epe-gov-br

epe4md:EPE's 4MD model to forecast the adoption of Distributed Generation and Behind-the-meter energy storage

EPE's 4MD model to forecast the adoption of Distributed Generation and Behind-the-meter energy storage

Maintained by Gabriel Konzen. Last updated 18 days ago.

19 stars 5.58 score 5 scripts

radiant-rstats

radiant.basics:Basics Menu for Radiant: Business Analytics using R and Shiny

The Radiant Basics menu includes interfaces for probability calculation, central limit theorem simulation, comparing means and proportions, goodness-of-fit testing, cross-tabs, and correlation. The application extends the functionality in 'radiant.data'.

Maintained by Vincent Nijs. Last updated 11 months ago.

8 stars 5.56 score 79 scripts 3 dependents

glottospace

glottospace:Language Mapping and Geospatial Analysis of Linguistic and Cultural Data

Streamlined workflows for geolinguistic analysis, including: accessing global linguistic and cultural databases, data import, data entry, data cleaning, data exploration, mapping, visualization and export.

Maintained by Rui Dong. Last updated 3 months ago.

23 stars 5.54 score 6 scripts

eonurk

cinaR:A Computational Pipeline for Bulk 'ATAC-Seq' Profiles

Differential analyses and Enrichment pipeline for bulk 'ATAC-seq' data analyses. This package combines different packages to have an ultimate package for both data analyses and visualization of 'ATAC-seq' data. Methods are described in 'Karakaslar et al.' (2021) <doi:10.1101/2021.03.05.434143>.

Maintained by Onur Karakaslar. Last updated 10 months ago.

atac-seq differential-analysis enrichment-analysis gene-sets

13 stars 5.52 score 51 scripts

persimune

explainer:Machine Learning Model Explainer

It enables detailed interpretation of complex classification and regression models through Shapley analysis including data-driven characterization of subgroups of individuals. Furthermore, it facilitates multi-measure model evaluation, model fairness, and decision curve analysis. Additionally, it offers enhanced visualizations with interactive elements.

Maintained by Ramtin Zargari Marandi. Last updated 6 months ago.

ai classification clinical-research explainability explainable-ai interpretability machine-learning regression shap statistics

15 stars 5.43 score 12 scripts

pik-piam

mrindustry:input data generation for the REMIND industry module

The mrindustry packages contains data preprocessing for the REMIND model.

Maintained by Falk Benke. Last updated 8 days ago.

5.43 score 2 dependents

maelstrom-research

madshapR:Support Technical Processes Following 'Maelstrom Research' Standards

Functions to support rigorous processes in data cleaning, evaluation, and documentation across datasets from different studies based on Maelstrom Research guidelines. The package includes the core functions to evaluate and format the main inputs that define the process, diagnose errors, and summarize and evaluate datasets and their associated data dictionaries. The main outputs are clean datasets and associated metadata, and tabular and visual summary reports. As described in Maelstrom Research guidelines for rigorous retrospective data harmonization (Fortier I and al. (2017) <doi:10.1093/ije/dyw075>).

Maintained by Guillaume Fabre. Last updated 11 months ago.

2 stars 5.40 score 28 scripts 3 dependents

massbays-tech

MassWateR:Quality Control and Analysis of Massachusetts Water Quality Data

Methods for quality control and exploratory analysis of surface water quality data collected in Massachusetts, USA. Functions are developed to facilitate data formatting for the Water Quality Exchange Network <https://www.epa.gov/waterdata/water-quality-data-upload-wqx> and reporting of data quality objectives to state agencies. Quality control methods are from Massachusetts Department of Environmental Protection (2020) <https://www.mass.gov/orgs/massachusetts-department-of-environmental-protection>.

Maintained by Marcus Beck. Last updated 8 days ago.

13 stars 5.29 score 10 scripts

harrison4192

validata:Validate Data Frames

Functions for validating the structure and properties of data frames. Answers essential questions about a data set after initial import or modification. What are the unique or missing values? What columns form a primary key? What are the properties of the numeric or categorical columns? What kind of overlap or mapping exists between 2 columns?

Maintained by Harrison Tietze. Last updated 24 days ago.

6 stars 5.26 score 4 scripts 1 dependents

nceas

scicomptools:Tools Developed by the NCEAS Scientific Computing Support Team

Set of tools to import, summarize, wrangle, and visualize data. These functions were originally written based on the needs of the various synthesis working groups that were supported by the National Center for Ecological Analysis and Synthesis (NCEAS). These tools are meant to be useful inside and outside of the context for which they were designed.

Maintained by Angel Chen. Last updated 5 months ago.

data-science

9 stars 5.26 score 6 scripts

bioc

gDR:Umbrella package for R packages in the gDR suite

Package is a part of the gDR suite. It reexports functions from other packages in the gDR suite that contain critical processing functions and utilities. The vignette walks through the full processing pipeline for drug response analyses that the gDR suite offers.

Maintained by Arkadiusz Gladki. Last updated 5 months ago.

software dataimport shinyapps

1 stars 5.20 score 7 scripts

pik-piam

modelstats:Run Analysis Tools

A collection of tools to analyze model runs.

Maintained by Anastasis Giannousakis. Last updated 12 days ago.

1 stars 5.19 score 2 scripts

harrison4192

framecleaner:Clean Data Frames

Provides a friendly interface for modifying data frames with a sequence of piped commands built upon the 'tidyverse' Wickham et al., (2019) <doi:10.21105/joss.01686> . The majority of commands wrap 'dplyr' mutate statements in a convenient way to concisely solve common issues that arise when tidying small to medium data sets. Includes smart defaults and allows flexible selection of columns via 'tidyselect'.

Maintained by Harrison Tietze. Last updated 1 years ago.

2 stars 5.18 score 5 scripts 5 dependents

guifabre

fabR:Wrapper Functions Collection Used in Data Pipelines

The goal of this package is to provide wrapper functions in the data cleaning and cleansing processes. These function helps in messages and interaction with the user, keep track of information in pipelines, help in the wrangling, munging, assessment and visualization of data frame-like material.

Maintained by Guillaume Fabre. Last updated 11 months ago.

1 stars 5.14 score 23 scripts 4 dependents

urswilke

datadaptor:Modify Labelled Data Sets With Excel Files

An R package to modify labelled data sets with commands in Excel files. The commands in this package allow to create new variables, and modify the labels of the variables, as well as the variables themselves. The goal is to provide an easy & concise syntax, and to allow for fast systematic data entry using Excel for advanced users. The commands work on the variables inside the data.frame environment (like e.g. inside dplyr verbs), thus providing an approach that might ease the use for people without in-depth programming experience.

Maintained by Urs Wilke. Last updated 1 months ago.

5.13 score 1 dependents

pik-piam

piamPlotComparison:Create comparison plots for your model results

A frameworks to create comparison plots for your model results.

Maintained by Falk Benke. Last updated 3 months ago.

5.12 score 11 scripts 8 dependents

spsanderson

healthyverse:Easily Install and Load the 'healthyverse'

The 'healthyverse' is a set of packages that work in harmony because they share common data representations and 'API' design. This package is designed to make it easy to install and load multiple 'healthyverse' packages in a single step.

Maintained by Steven Sanderson. Last updated 6 months ago.

analytics healthcare healthcare-application installation installer meta packages

11 stars 5.12 score 24 scripts

pik-piam

mrmagpie:madrat based MAgPIE Input Data Library

Provides functions for MAgPIE country and cellular input data generation.

Maintained by Kristine Karstens. Last updated 10 days ago.

5.12 score 2 dependents

promidat

loadeR:Load Data for Analysis System

Provides a framework to load text and excel files through a 'shiny' graphical interface. It allows renaming, transforming, ordering and removing variables. It includes basic exploratory methods such as the mean, median, mode, normality test, histogram and correlation.

Maintained by Oldemar Rodriguez. Last updated 2 years ago.

5.09 score 275 scripts 3 dependents

riksrevisjonen

pioneeR:Productivity and Efficiency Analysis using DEA

Measure productivity and efficiency using Data Envelopment Analysis (DEA). Available methods include DEA under different technology assumptions, bootstrapping of efficiency scores and calculation of the Malmquist productivity index. Analyses can be performed either in the console or with the provided 'shiny' app. See Banker, R.; Charnes, A.; Cooper, W.W. (1984) <doi:10.1287/mnsc.30.9.1078>, Färe, R.; Grosskopf, S. (1996) <doi:10.1007/978-94-009-1816-0>.

Maintained by Ove Haugland Jakobsen. Last updated 5 months ago.

dea efficiency producitivity

7 stars 5.09 score 5 scripts

fsolt

pewdata:Reproducible Retrieval of Pew Research Center Datasets

Reproducible, programmatic retrieval of survey datasets from the Pew Research Center.

Maintained by Frederick Solt. Last updated 4 years ago.

research-data webservice-client

10 stars 5.00 score 4 scripts

pik-piam

remulator:R emulator

A collection of R tools for fitting model results.

Maintained by David Klein. Last updated 1 years ago.

5.00 score 11 scripts 6 dependents

ropengov

psData:Download Regularly Maintained Political Science Data Sets

This R package includes functions for gathering commonly used and regularly maintained data set in political science. It also includes functions for combining components from these data sets into variables that have been suggested in the literature, but are not regularly maintained.

Maintained by Christopher Gandrud. Last updated 2 years ago.

ropengov

45 stars 4.95 score

dusadrian

DDIwR:DDI with R

Useful functions for various DDI (Data Documentation Initiative) related inputs and outputs. Converts data files to and from DDI, SPSS, Stata, SAS, R and Excel, including user declared missing values.

Maintained by Adrian Dusa. Last updated 4 months ago.

15 stars 4.92 score 10 scripts

struckma

dataquieR:Data Quality in Epidemiological Research

Data quality assessments guided by a 'data quality framework introduced by Schmidt and colleagues, 2021' <doi:10.1186/s12874-021-01252-7> target the data quality dimensions integrity, completeness, consistency, and accuracy. The scope of applicable functions rests on the availability of extensive metadata which can be provided in spreadsheet tables. Either standardized (e.g. as 'html5' reports) or individually tailored reports can be generated. For an introduction into the specification of corresponding metadata, please refer to the 'package website' <https://dataquality.qihs.uni-greifswald.de/VIN_Annotation_of_Metadata.html>.

Maintained by Stephan Struckmann. Last updated 18 days ago.

4.90 score 9 scripts

psychbruce

ChineseNames:Chinese Name Database 1930-2008

A database of Chinese surnames and Chinese given names (1930-2008). This database contains nationwide frequency statistics of 1,806 Chinese surnames and 2,614 Chinese characters used in given names, covering about 1.2 billion Han Chinese population (96.8% of the Han Chinese household-registered population born from 1930 to 2008 and still alive in 2008). This package also contains a function for computing multiple features of Chinese surnames and Chinese given names for scientific research (e.g., name uniqueness, name gender, name valence, and name warmth/competence).

Maintained by Han-Wu-Shuang Bao. Last updated 2 years ago.

big-data chinese chinese-name chinese-names database name names

150 stars 4.88 score 6 scripts

pik-piam

mrtransport:Input data generation for the EDGE-Transport model

The mrtransport package contains data preprocessing for the EDGE-Transport model.

Maintained by Johanna Hoppe. Last updated 9 hours ago.

4.86 score 3 dependents

pik-piam

mrvalidation:madrat data preparation for validation purposes

Package contains routines to prepare data for validation exercises.

Maintained by Benjamin Leon Bodirsky. Last updated 5 days ago.

4.81 score 9 scripts 1 dependents

pik-piam

piamutils:Utilities for the piam-verse

This package contains utilities and helpers needed in various piam libraries.

Maintained by Falk Benke. Last updated 2 months ago.

4.78 score 28 scripts 12 dependents

zpneal

childfree:Access and Harmonize Childfree Demographic Data

Reads demographic data from a variety of public data sources, extracting and harmonizing variables useful for the study of childfree individuals. The identification of childfree individuals and those with other family statuses uses Neal & Neal's (2024) "A Framework for Studying Adults who Neither have Nor Want Children" <doi:10.1177/10664807231198869>; A pre-print is available at <doi:10.31234/osf.io/fa89m>.

Maintained by Zachary Neal. Last updated 5 days ago.

4.78 score 1 scripts

harrison4192

tidybins:Make Tidy Bins

Multiple ways to bin numeric columns with a tidy output. Wraps a variety of existing binning methods into one function, and includes a new method for binning by equal value, which is useful for sales data. Provides a function to automatically summarize the properties of the binned columns.

Maintained by Harrison Tietze. Last updated 10 months ago.

4 stars 4.78 score 2 scripts 1 dependents

radiant-rstats

radiant.multivariate:Multivariate Menu for Radiant: Business Analytics using R and Shiny

The Radiant Multivariate menu includes interfaces for perceptual mapping, factor analysis, cluster analysis, and conjoint analysis. The application extends the functionality in 'radiant.data'.

Maintained by Vincent Nijs. Last updated 19 days ago.

5 stars 4.76 score 38 scripts 1 dependents

mcodrescu

octopus:A Database Management Tool

A database management tool built as a 'shiny' application. Connect to various databases to send queries, upload files, preview tables, and more.

Maintained by Marcus Codrescu. Last updated 12 months ago.

data-science database rshiny

11 stars 4.74 score 4 scripts

bioc

GNOSIS:Genomics explorer using statistical and survival analysis in R

GNOSIS incorporates a range of R packages enabling users to efficiently explore and visualise clinical and genomic data obtained from cBioPortal. GNOSIS uses an intuitive GUI and multiple tab panels supporting a range of functionalities. These include data upload and initial exploration, data recoding and subsetting, multiple visualisations, survival analysis, statistical analysis and mutation analysis, in addition to facilitating reproducible research.

Maintained by Lydia King. Last updated 5 months ago.

software shinyapps survival gui

5 stars 4.70 score 2 scripts

pik-piam

mrfactors:MADRaT based package on factor inputs

This package provides functions for MAgPIE input data on factor inputs to agricultural production (with a focus on capital and labor).

Maintained by Debbora Leip. Last updated 2 days ago.

4.67 score 1 scripts 5 dependents

crenteriam

importinegi:Download and Manage Open Data from INEGI

Download and manage data sets of statistical projects and geographic data created by Instituto Nacional de Estadistica y Geografia (INEGI). See <https://www.inegi.org.mx/>.

Maintained by Cesar Renteria. Last updated 1 years ago.

9 stars 4.65 score 4 scripts

msperlin

GetFREData:Reading FRE Corporate Data of Public Traded Companies from B3

Reads corporate data such as board composition and compensation for companies traded at B3, the Brazilian exchange <https://www.b3.com.br/>. All data is downloaded and imported from the ftp site <http://dados.cvm.gov.br/dados/CIA_ABERTA/DOC/FRE/>.

Maintained by Marcelo Perlin. Last updated 12 months ago.

5 stars 4.63 score 17 scripts

pik-piam

reporttransport:Reporting package for edgeTransport

This package contains edgeTransport-specific routines to report model results. The main functionality is to generate transport reporting variables in MIF format from a given edgeTransport model run folder or REMIND input data.

Maintained by Johanna Hoppe. Last updated 2 months ago.

4.60 score 9 scripts 3 dependents

radiant-rstats

radiant.design:Design Menu for Radiant: Business Analytics using R and Shiny

The Radiant Design menu includes interfaces for design of experiments, sampling, and sample size calculation. The application extends the functionality in 'radiant.data'.

Maintained by Vincent Nijs. Last updated 11 months ago.

11 stars 4.57 score 19 scripts 1 dependents

cran

metaumbrella:Umbrella Review Package for R

A comprehensive range of facilities to perform umbrella reviews with stratification of the evidence in R. The package accomplishes this aim by building on three core functions that: (i) automatically perform all required calculations in an umbrella review (including but not limited to meta-analyses), (ii) stratify evidence according to various classification criteria, and (iii) generate a visual representation of the results. Note that if you are not familiar with R, the core features of this package are available from a web browser (<https://www.metaumbrella.org/>).

Maintained by Corentin J Gosling. Last updated 29 days ago.

9 stars 4.56 score

andresfloresg

BiVariAn:Bivariate Automatic Analysis

Simplify bivariate and regression analyses by automating result generation, including summary tables, statistical tests, and customizable graphs. It supports tests for continuous and dichotomous data, as well as stepwise regression for linear, logistic, and Firth penalized logistic models. While not a substitute for tailored analysis, 'BiVariAn' accelerates workflows and is expanding features like multilingual interpretations of results.The methods for selecting significant statistical tests, as well as the predictor selection in prediction functions, can be referenced in the works of Marc Kery (2003) <doi:10.1890/0012-9623(2003)84[92:NORDIG]2.0.CO;2> and Rainer Puhr (2017) <doi:10.1002/sim.7273>.

Maintained by José Andrés Flores-García. Last updated 23 days ago.

4.54 score

urswilke

crosstabser:Generate Crosstabs of Labelled Data Sets with Excel Files

An R package to use commands in Excel files to generate crosstabs of labelled data sets (usually survey data). The crosstabs can be printed to the console, and serve as an input for an app to plot them interactively.

Maintained by Urs Wilke. Last updated 1 days ago.

4.50 score

pik-piam

piamValidation:Validation Tools for PIK-PIAM

The piamValidation package provides validation tools for the Potsdam Integrated Assessment Modelling environment.

Maintained by Pascal Weigmann. Last updated 2 days ago.

1 stars 4.49 score 13 scripts

regisoc

kibior:A Simple Data Management and Sharing Tool

An interface to store, retrieve, search, join and share datasets, based on Elasticsearch (ES) API. As a decentralized, FAIR and collaborative search engine and database effort, it proposes a simple push/pull/search mechanism only based on ES, a tool which can be deployed on nearly any hardware. It is a high-level R-ES binding to ease data usage using 'elastic' package (S. Chamberlain (2020)) <https://docs.ropensci.org/elastic/>, extends joins from 'dplyr' package (H. Wickham et al. (2020)) <https://dplyr.tidyverse.org/> and integrates specific biological format importation with Bioconductor packages such as 'rtracklayer' (M. Lawrence and al. (2009) <doi:10.1093/bioinformatics/btp328>) <http://bioconductor.org/packages/rtracklayer>, 'Biostrings' (H. Pagès and al. (2020) <doi:10.18129/B9.bioc.Biostrings>) <http://bioconductor.org/packages/Biostrings>, and 'Rsamtools' (M. Morgan and al. (2020) <doi:10.18129/B9.bioc.Rsamtools>) <http://bioconductor.org/packages/Rsamtools>, but also a long list of more common ones with 'rio' (C-h. Chan and al. (2018)) <https://cran.r-project.org/package=rio>.

Maintained by Régis Ongaro-Carcy. Last updated 4 years ago.

dataimport datarepresentation thirdpartyclient data-science database datasets elasticsearch elasticsearch-client push-pull search search-engine

3 stars 4.48 score 8 scripts

bioc

ComPrAn:Complexome Profiling Analysis package

This package is for analysis of SILAC labeled complexome profiling data. It uses peptide table in tab-delimited format as an input and produces ready-to-use tables and plots.

Maintained by Petra Palenikova. Last updated 5 months ago.

massspectrometry proteomics visualization

4.48 score 5 scripts

lgnbhl

xlcharts:Create Native 'Excel' Charts and Work with Microsoft 'Excel' Files

An R interface to the 'OpenPyXL' 'Python' library to create native 'Excel' charts and work with Microsoft 'Excel' files.

Maintained by Felix Luginbuhl. Last updated 24 days ago.

excel

12 stars 4.48 score 4 scripts

fsolt

gesisdata:Reproducible Data Retrieval from the GESIS Data Archive

Reproducible, programmatic retrieval of datasets from the GESIS Data Archive. The GESIS Data Archive <https://search.gesis.org> makes available thousands of invaluable datasets, but researchers using these datasets are caught in a bind. The archive's terms and conditions bar dissemination of downloaded datasets to third parties, but to ensure that one's work can be reproduced, assessed, and built upon by others, one must provide access to the raw data one has employed. The 'gesisdata' package cuts this knot by providing registered users with programmatic, reproducible access to GESIS datasets from within 'R'.

Maintained by Frederick Solt. Last updated 2 years ago.

6 stars 4.48 score 1 scripts

r4epi

sitrep:Report templates and helper functions for applied epidemiology

Report templates and helper functions for applied epidemiology.

Maintained by Alexander Spina. Last updated 23 days ago.

epidemiology msf outbreaks report-generator

41 stars 4.46 score 9 scripts

bioc

GUIDEseq:GUIDE-seq and PEtag-seq analysis pipeline

The package implements GUIDE-seq and PEtag-seq analysis workflow including functions for filtering UMI and reads with low coverage, obtaining unique insertion sites (proxy of cleavage sites), estimating the locations of the insertion sites, aka, peaks, merging estimated insertion sites from plus and minus strand, and performing off target search of the extended regions around insertion sites with mismatches and indels.

Maintained by Lihua Julie Zhu. Last updated 5 months ago.

immunooncology generegulation sequencing workflowstep crispr

4.45 score 14 scripts

christophergandrud

dpmr:Data Package Manager for R

Create, install, and summarise data packages that follow the Open Knowledge Foundation's Data Package Protocol.

Maintained by Christopher Gandrud. Last updated 8 years ago.

56 stars 4.45 score 5 scripts

ftwkoopmans

goat:Gene Set Analysis Using the Gene Set Ordinal Association Test

Perform gene set enrichment analyses using the Gene set Ordinal Association Test (GOAT) algorithm and visualize your results. Koopmans, F. (2024) <doi:10.1038/s42003-024-06454-5>.

Maintained by Frank Koopmans. Last updated 1 months ago.

bioinformatics geneset-enrichment geneset-enrichment-analysis cpp openmp

10 stars 4.40 score 8 scripts

fsolt

ropercenter:Reproducible Data Retrieval from the Roper Center Data Archive

Reproducible, programmatic retrieval of datasets from the Roper Center data archive. The Roper Center for Public Opinion Research <https://ropercenter.cornell.edu> maintains the largest archive of public opinion data in existence, but researchers using these datasets are caught in a bind. The Center's terms and conditions bar redistribution of downloaded datasets, but to ensure that one's work can be reproduced, assessed, and built upon by others, one must provide access to the raw data one employed. The `ropercenter` package cuts this knot by providing registered users with programmatic, reproducible access to Roper Center datasets from within R.

Maintained by Frederick Solt. Last updated 2 years ago.

research-data webservice-client

5 stars 4.40 score 4 scripts

xiaoyangsu

accucor:Natural Abundance Correction of Mass Spectrometer Data

An isotope natural abundance correction algorithm that is needed especially for high resolution mass spectrometers. Supports correction for 13C, 2H and 15N. Su X, Lu W and Rabinowitz J (2017) <doi:10.1021/acs.analchem.7b00396>.

Maintained by Lance Parsons. Last updated 2 years ago.

16 stars 4.38 score 6 scripts 1 dependents

vusaverse

vvdoctor:Statistical Test App with R 'shiny'

Provides a user-friendly R 'shiny' app for performing various statistical tests on datasets. It allows users to upload data in numerous formats and perform statistical analyses. The app dynamically adapts its options based on the selected columns and supports both single and multiple column comparisons. The app's user interface is designed to streamline the process of selecting datasets, columns, and test options, making it easy for users to explore and interpret their data. The underlying functions for statistical tests are well-organized and can be used independently within other R scripts.

Maintained by Tomer Iwan. Last updated 11 months ago.

hypothesis-testing r-r-shiny shiny-apps shiny-r statistical-tests statistics stats

7 stars 4.32 score 3 scripts

jiangyouxiang

TestAnaAPP:A 'shiny' App for Test Analysis and Visualization

This application provides exploratory and confirmatory factor analysis, classical test theory, unidimensional and multidimensional item response theory, and continuous item response model analysis, through the 'shiny' interactive interface. In addition, it offers rich functionalities for visualizing and downloading results. Users can download figures, tables, and analysis reports via the interactive interface.

Maintained by Youxiang Jiang. Last updated 4 months ago.

4 stars 4.30 score 2 scripts

andrisignorell

DescToolsAddIns:Interactive Functions to be Used as Shortcuts in 'RStudio'

'RStudio' as of recently offers the option to define addins and assign shortcuts to them. This package contains addins for a few most frequently used functions in a data scientist's (at least mine) daily work (like str(), example(), plot(), head(), view(), Desc()). Most of these functions will use the current selection in the editor window and send the specific command to the console while instantly executing it. Assigning shortcuts to these addins will save you quite a few keystrokes.

Maintained by Andri Signorell. Last updated 5 months ago.

4 stars 4.24 score 2 scripts 1 dependents

ankonahouston

OralOpioids:Retrieving Oral Opioid Information

Provides details such as Morphine Equivalent Dose (MED), brand name and opioid content which are calculated of all oral opioids authorized for sale by Health Canada and the FDA based on their Drug Identification Number (DIN) or National Drug Code (NDC). MEDs are calculated based on recommendations by Canadian Institute for Health Information (CIHI) and Von Korff et al (2008) and information obtained from Health Canada's Drug Product Database's monthly data dump or FDA Daily database for Canadian and US databases respectively. Please note in no way should output from this package be a substitute for medical advise. All medications should only be consumed on prescription from a licensed healthcare provider.

Maintained by Ankona Banerjee. Last updated 3 months ago.

1 stars 4.18 score 4 scripts

gsk-biostatistics

tfrmtbuilder:'shiny' App Companion to the 'tfrmt' Package

Provides an interactive interface to the 'tfrmt' package. Users can import, modify, and export tables and templates with little to no code.

Maintained by Becca Krouse. Last updated 7 months ago.

5 stars 4.18 score 9 scripts

nicolas-robette

moreparty:A Toolbox for Conditional Inference Trees and Random Forests

Additions to 'party' and 'partykit' packages : tools for the interpretation of forests (surrogate trees, prototypes, etc.), feature selection (see Gregorutti et al (2017) <arXiv:1310.5726>, Hapfelmeier and Ulm (2013) <doi:10.1016/j.csda.2012.09.020>, Altmann et al (2010) <doi:10.1093/bioinformatics/btq134>) and parallelized versions of conditional forest and variable importance functions. Also modules and a shiny app for conditional inference trees.

Maintained by Nicolas Robette. Last updated 12 months ago.

3 stars 4.18 score 8 scripts

dungtsa

AdverseEvents:'shiny' Application for Adverse Event Analysis of 'OnCore' Data

An application for analysis of Adverse Events, as described in Chen, et al., (2023) <doi:10.3390/cancers15092521>. The required data for the application includes demographics, follow up, adverse event, drug administration and optional tumor measurement data. The app can produce swimmers plots of adverse events, Kaplan-Meier plots and Cox Proportional Hazards model results for the association of adverse event biomarkers and overall survival and progression free survival. The adverse event biomarkers include occurrence of grade 3, low grade (1-2), and treatment related adverse events. Plots and tables of results are downloadable.

Maintained by Z Thompson. Last updated 4 months ago.

1 stars 4.18 score

rmi-pacta

pacta.portfolio.report:pacta.portfolio.report

For more information visit <https://rmi.org/>.

Maintained by Monika Furdyna. Last updated 2 months ago.

climate-change sustainable-finance

1 stars 4.06 score 2 scripts 1 dependents

psychbruce

PsychWordVec:Word Embedding Research Framework for Psychological Science

An integrative toolbox of word embedding research that provides: (1) a collection of 'pre-trained' static word vectors in the '.RData' compressed format <https://psychbruce.github.io/WordVector_RData.pdf>; (2) a series of functions to process, analyze, and visualize word vectors; (3) a range of tests to examine conceptual associations, including the Word Embedding Association Test <doi:10.1126/science.aal4230> and the Relative Norm Distance <doi:10.1073/pnas.1720347115>, with permutation test of significance; (4) a set of training methods to locally train (static) word vectors from text corpora, including 'Word2Vec' <arXiv:1301.3781>, 'GloVe' <doi:10.3115/v1/D14-1162>, and 'FastText' <arXiv:1607.04606>; (5) a group of functions to download 'pre-trained' language models (e.g., 'GPT', 'BERT') and extract contextualized (dynamic) word vectors (based on the R package 'text').

Maintained by Han-Wu-Shuang Bao. Last updated 1 years ago.

22 stars 4.04 score 10 scripts

pik-piam

mrsoil:MadRat Soil Organic Carbon Budget Library

This packages provides functions for soil organic carbon budget for mineral soils using the steady-state method (Tier 2) of the 2019 Refinement to the 2006 IPP Guidelines for National Greenhouse Gas Inventories.

Maintained by Kristine Karstens. Last updated 6 months ago.

3 stars 4.03 score 3 dependents

barnzilla

capl:Compute and Visualize CAPL-2 Scores and Interpretations

A toolkit for computing and visualizing CAPL-2 (Canadian Assessment of Physical Literacy, Second Edition; <https://www.capl-eclp.ca>) scores and interpretations from raw data.

Maintained by Joel Barnes. Last updated 3 years ago.

2 stars 4.00 score 2 scripts

personalizedtransplantcare

banffIT:Automatize Diagnosis Standardized Assignation Using the Banff Classification

Assigns standardized diagnoses using the Banff Classification (Category 1 to 6 diagnoses, including Acute and Chronic active T-cell mediated rejection as well as Active, Chronic active, and Chronic antibody mediated rejection). The main function considers a minimal dataset containing biopsies information in a specific format (described by a data dictionary), verifies its content and format (based on the data dictionary), assigns diagnoses, and creates a summary report. The package is developed on the reference guide to the Banff classification of renal allograft pathology Roufosse C, Simmonds N, Clahsen-van Groningen M, et al. A (2018) <doi:10.1097/TP.0000000000002366>. The full description of the Banff classification is available at <https://banfffoundation.org/>.

Maintained by Guillaume Fabre. Last updated 11 months ago.

4.00 score

sigbertklinke

mmstat4:Access to Teaching Materials from a ZIP File or GitHub

Provides access to teaching materials for various statistics courses, including R and Python programs, Shiny apps, data, and PDF/HTML documents. These materials are stored on the Internet as a ZIP file (e.g., in a GitHub repository) and can be downloaded and displayed or run locally. The content of the ZIP file is temporarily or permanently stored. By default, the package uses the GitHub repository 'sigbertklinke/mmstat4.data.' Additionally, the package includes 'association_measures.R' from the archived package 'ryouready' by Mark Heckman and some auxiliary functions.

Maintained by Sigbert Klinke. Last updated 7 months ago.

4.00 score 1 scripts

ttacail

isobxr:Stable Isotope Box Modelling in R

A set of functions to run simple and composite box-models to describe the dynamic or static distribution of stable isotopes in open or closed systems. The package also allows the sweeping of many parameters in both static and dynamic conditions. The mathematical models used in this package are derived from Albarede, 1995, Introduction to Geochemical Modelling, Cambridge University Press, Cambridge <doi:10.1017/CBO9780511622960>.

Maintained by Theo Tacail. Last updated 11 months ago.

1 stars 4.00 score 2 scripts

bioc

LinkHD:LinkHD: a versatile framework to explore and integrate heterogeneous data

Here we present Link-HD, an approach to integrate heterogeneous datasets, as a generalization of STATIS-ACT (“Structuration des Tableaux A Trois Indices de la Statistique–Analyse Conjointe de Tableaux”), a family of methods to join and compare information from multiple subspaces. However, STATIS-ACT has some drawbacks since it only allows continuous data and it is unable to establish relationships between samples and features. In order to tackle these constraints, we incorporate multiple distance options and a linear regression based Biplot model in order to stablish relationships between observations and variable and perform variable selection.

Maintained by "Laura M Zingaretti". Last updated 5 months ago.

classification multiplecomparison regression software

4.00 score 2 scripts

bioc

rifiComparative:'rifiComparative' compares the output of rifi from two different conditions.

'rifiComparative' is a continuation of rifi package. It compares two conditions output of rifi using half-life and mRNA at time 0 segments. As an input for the segmentation, the difference between half-life of both condtions and log2FC of the mRNA at time 0 are used. The package provides segmentation, statistics, summary table, fragments visualization and some additional useful plots for further anaylsis.

Maintained by Loubna Youssar. Last updated 5 months ago.

rnaseq differentialexpression generegulation transcriptomics microarray software

4.00 score

albertoalmuinha

shinyrecipes:Gadget to Use the Data Preprocessing 'recipes' Package Interactively

This gadget allows you to use the 'recipes' package belonging to 'tidymodels' to carry out the data preprocessing tasks in an interactive way. Build your 'recipe' by dragging the variables, visually analyze your data to decide which steps to use, add those steps and pre-process your data.

Maintained by Alberto Almuiña. Last updated 5 years ago.

19 stars 3.98 score 5 scripts

le-huynh

lehuynh:Le-Huynh Truc-Ly's R Code and Templates

Miscellaneous R functions (for graphics, data import, data transformation, and general utilities) and templates (for exploratory analysis, Bayesian modeling, and crafting scientific manuscripts).

Maintained by Truc-Ly Le-Huynh. Last updated 10 months ago.

personal-rpackage

3 stars 3.88 score 4 scripts

eurostat

correspondenceTables:Creating Correspondence Tables Between Two Statistical Classifications

A candidate correspondence table between two classifications can be created when there are correspondence tables leading from the first classification to the second one via intermediate 'pivot' classifications. The correspondence table between two statistical classifications can be updated when one of the classifications gets updated to a new version.

Maintained by Mátyás Mészáros. Last updated 2 months ago.

eurostat statistical-classification

7 stars 3.85 score 4 scripts

pik-piam

piamModelTests:piamModelTests Tools

A collection of R tools provided by the Integrated Assessment Modeling Consortium (IAMC) for data analysis and diagnostics.

Maintained by Jan Philipp Dietrich. Last updated 1 years ago.

3.78 score 1 scripts

rmi-pacta

pactaverse:Easily Install and Load the 'PACTA-verse'

The 'pactaverse' is a set of packages that work to help R users implement various functionality related to the PACTA open source project.

Maintained by Jackson Hoffart. Last updated 4 months ago.

6 stars 3.73 score 3 scripts

pik-piam

brick:Building sector model with heterogeneous renovation and construction of the stock

This building stock model represents residential and commercial buildings at customisable regional and temporal resolution. The building stock is quantified in floor area and distinguished by building type (SFH/MFH) and location (rural/urban). In each building category, construction cohorts are tracked explicitly. This allows to characterise buildings specifically for each subset of buildings. The evolution of the building stock follows from the flows of constructed, renovated and demolished buildings and is optimised under cost minimisation with a benefit for heterogeneity in the choice of construction and renovation alternatives. This benefit captures heterogeneity in the preferences of the agents and the building structure.

Maintained by Robin Hasse. Last updated 10 days ago.

3.73 score 1 dependents

pik-piam

mredgebuildings:Prepare data to be used by the EDGE-Buildings model

Prepare data to be used by the EDGE-Buildings model.

Maintained by Robin Hasse. Last updated 15 days ago.

3.72 score

repboxr

repboxReg:Repbox module for analysing regressions

Repbox module for analysing regressions

Maintained by Sebastian Kranz. Last updated 1 months ago.

3.71 score 6 scripts 2 dependents

tmungle

allMT:Acute Lymphoblastic Leukemia Maintenance Therapy Analysis

Evaluates acute lymphoblastic leukemia maintenance therapy practice at patient and cohort level.

Maintained by Tushar Mungle. Last updated 1 months ago.

3.70 score 2 scripts

truenomad

epiCleanr:A Tidy Solution for Epidemiological Data

Offers a tidy solution for epidemiological data. It houses a range of functions for epidemiologists and public health data wizards for data management and cleaning.

Maintained by Mohamed A. Yusuf. Last updated 1 years ago.

3.70 score 4 scripts

poissonconsulting

subfoldr2:Save and Load R Objects

Facilitates saving and loading R objects, data frames, tables, plots, text blocks and numbers to subfolders.

Maintained by Joe Thorley. Last updated 26 days ago.

2 stars 3.70 score 5 scripts

maialba3

FAMetA:Fatty Acid Metabolic Analysis

Fatty acid metabolic analysis aimed to the estimation of FA import (I), de novo synthesis (S), fractional contribution of the 13C-tracers (D0, D1, D2), elongation (E) and desaturation (Des) based on mass isotopologue data.

Maintained by Maribel Alcoriza-Balaguer. Last updated 1 years ago.

1 stars 3.70 score 2 scripts

tardipede

concatipede:Easy Concatenation of Fasta Sequences

Concatenation of multiple sequence alignments based on a correspondence table that can be edited in Excel <doi:10.5281/zenodo.5130603>.

Maintained by Matteo Vecchi. Last updated 3 years ago.

3.70 score 5 scripts

maelstrom-research

mlstrOpalr:Support Compatibility Between 'Maelstrom' R Packages and 'Opal' Environment

Functions to support compatibility between 'Maelstrom' R packages and 'Opal' environment. 'Opal' is the 'OBiBa' core database application for biobanks. It is used to build data repositories that integrates data collected from multiple sources. 'Opal Maelstrom' is a specific implementation of this software. This 'Opal' client is specifically designed to interact with 'Opal Maelstrom' distributions to perform operations on the R server side. The user must have adequate credentials. Please see <https://opaldoc.obiba.org/> for complete documentation.

Maintained by Guillaume Fabre. Last updated 11 months ago.

1 stars 3.70 score 3 scripts

lcbc-uio

Conversions:Collection of functions that convert certain RAW data in the LCBC database

Collection of functions that convert certain RAW data in the LCBC database.

Maintained by Athanasia Monika Mowinckel. Last updated 4 years ago.

3.65 score 10 scripts

harrison4192

TidyConsultant:Tidy Consultant Universe

Loads the 5 packages in the Tidy Consultant Universe. This collection of packages is useful for anyone doing data science, data analysis, or quantitative consulting. The functions in these packages range from data cleaning, data validation, data binning, statistical modeling, and file exporting.

Maintained by Harrison Tietze. Last updated 10 months ago.

8 stars 3.60 score 2 scripts

pr2database

pr2database:PR2 database with shiny web interface

PR2 database See https://pr2-database.org

Maintained by Daniel Vaulot. Last updated 2 years ago.

18s-rrna database eukaryotes metabarcoding rrna taxonomy

80 stars 3.60 score 7 scripts

pik-piam

mrfeed:MadRat feed data package

Provides feed related data.

Maintained by Isabelle Weindl. Last updated 12 months ago.

3.56 score

corentinjgosling

metaConvert:An Automatic Suite for Estimation of Various Effect Size Measures

Automatically estimate 11 effect size measures from a well-formatted dataset. Various other functions can help, for example, removing dependency between several effect sizes, or identifying differences between two datasets. This package is mainly designed to assist in conducting a systematic review with a meta-analysis but can be useful to any researcher interested in estimating an effect size.

Maintained by Corentin J. Gosling. Last updated 4 months ago.

3.48 score 3 scripts 1 dependents

pik-piam

reportbrick:Reporting package for BRICK

This package contains BRICK-specific routines to report model results. The main functionality is to generate a mif-file from a given BRICK model run folder.

Maintained by Robin Hasse. Last updated 1 months ago.

3.48 score 2 dependents

redworld123

CoastlineFD:Calculation of the Fractal Dimension of a Coastline

Calculating the fractal dimension of a coastline using the boxes and dividers methods.

Maintained by Zhao Shiqi. Last updated 12 months ago.

3 stars 3.48 score

tingtingzhan

ThomasJeffersonUniv:Handy Tools for TJU/TJUH Employees

Functions for admin needs of employees of Thomas Jefferson University and Thomas Jefferson University Hospital, Philadelphia, PA.

Maintained by Tingting Zhan. Last updated 17 days ago.

3.45 score

pik-piam

shinyresults:A collection of shiny apps and modules to visualize/handle model results

A collection of tools which allow to manipulate and analyze code.

Maintained by Jan Philipp Dietrich. Last updated 2 days ago.

2 stars 3.45 score

pik-piam

m4fsdp:MAgPIE outputs R package for MAgPIE version 4.x to create outputs for FSDP project

Output routines for extracting results from the MAgPIE framework (versions 4.x) for the FSDP project.

Maintained by Benjamin Leon Bodirsky. Last updated 4 months ago.

3.43 score 8 scripts

poissonconsulting

bbousuite:Easily Install and Load `bbou` (Boreal cariBOU) Packages

The `bbou` suite of packages are designed to allow analysis (`bbouretro` and `bboutools`) and simulation (`bbousims`) of Boreal Caribou survival and recruitment data ('bboudata') to estimate population growth rates. A shiny app is also available (`bboushiny`).

Maintained by Ayla Pearson. Last updated 18 days ago.

3.40 score 4 scripts

xitingwang-ida

sysAgNPs:Systematic Quantification of AgNPs to Unleash their Potential for Applicability

There is variation across AgNPs due to differences in characterization techniques and testing metrics employed in studies. To address this problem, we have developed a systematic evaluation framework called 'sysAgNPs'. Within this framework, Distribution Entropy (DE) is utilized to measure the uncertainty of feature categories of AgNPs, Proclivity Entropy (PE) assesses the preference of these categories, and Combination Entropy (CE) quantifies the uncertainty of feature combinations of AgNPs. Additionally, a Markov chain model is employed to examine the relationships among the sub-features of AgNPs and to determine a Transition Score (TS) scoring standard that is based on steady-state probabilities. The 'sysAgNPs' framework provides metrics for evaluating AgNPs, which helps to unravel their complexity and facilitates effective comparisons among different AgNPs, thereby advancing the scientific research and application of these AgNPs.

Maintained by Xiting Wang. Last updated 28 days ago.

3.40 score

datarapi

Rapi:Interface for Multiple Data Providers `EDDS` and `FRED`

Interface for multiple data sources, such as the `EDDS` API <https://evds2.tcmb.gov.tr/index.php?/evds/userDocs> of the Central Bank of the Republic of Türkiye and the `FRED` API <https://fred.stlouisfed.org/docs/api/fred/> of the Federal Reserve Bank. Both data providers require API keys for access, which users can easily obtain by creating accounts on their respective websites. The package provides caching ability with the selection of periods to increase the speed and efficiency of requests. It combines datasets requested from different sources, helping users when the data has common frequencies. While combining data frames whenever possible, it also keeps all requested data available as separate data frames to increase efficiency.

Maintained by Sermet Pekin. Last updated 2 months ago.

edds evds evds-api evdsapi fred cpp

1 stars 3.40 score 5 scripts

repboxr

repboxRun:Run repbox analyses

Run repbox analyses

Maintained by Sebastian Kranz. Last updated 2 months ago.

3.36 score 11 scripts 1 dependents

poissonconsulting

bboushiny:Shiny App for Analysing Boreal Caribou Surival, Recruitment and Lambda

Use Bayesian methods to calculate survival, recruitment and lambda as well as confidence intervals.

Maintained by Pearson Ayla. Last updated 2 months ago.

3.32 score 3 scripts 1 dependents

abdel-elsayed87

GRIN2:Genomic Random Interval (GRIN)

Improved version of 'GRIN' software that streamlines its use in practice to analyze genomic lesion data, accelerate its computing, and expand its analysis capabilities to answer additional scientific questions including a rigorous evaluation of the association of genomic lesions with RNA expression. Pounds, Stan, et al. (2013) <DOI:10.1093/bioinformatics/btt372>.

Maintained by Abdelrahman Elsayed. Last updated 4 months ago.

3.30 score

cran

AFR:Toolkit for Regression Analysis of Kazakhstan Banking Sector Data

Tool is created for regression, prediction and forecast analysis of macroeconomic and credit data. The package includes functions from existing R packages adapted for banking sector of Kazakhstan. The purpose of the package is to optimize statistical functions for easier interpretation for bank analysts and non-statisticians.

Maintained by Sultan Zhaparov. Last updated 7 months ago.

3.18 score

coreofscience

margaret:Scientometric Analysis Minciencias

The target of 'margaret' is help to extract data from Minciencias to analyze scientific production in Colombia.

Maintained by Bryan Arias. Last updated 2 years ago.

3 stars 3.18 score 4 scripts

jpmonteagudo28

matriz:Literature Matrix Synthesis Tools for Epidemiology and Health Science Research

An easy-to-use workflow that provides tools to create, update and fill literature matrices commonly used in research, specifically epidemiology and health sciences research. The project is born out of need as an easy–to–use tool for my research methods classes.

Maintained by JP Monteagudo. Last updated 2 months ago.

epidemiology health literature-review research science

3.18 score

bendeivide

midrangeMCP:Multiples Comparisons Procedures Based on Studentized Midrange and Range Distributions

Apply tests of multiple comparisons based on studentized 'midrange' and 'range' distributions. The tests are: Tukey Midrange ('TM' test), Student-Newman-Keuls Midrange ('SNKM' test), Means Grouping Midrange ('MGM' test) and Means Grouping Range ('MGR' test). The first two tests were published by Batista and Ferreira (2020) <doi:10.1590/1413-7054202044008020>. The last two are being published.

Maintained by Ben Deivide. Last updated 4 years ago.

3.16 score 29 scripts

ramiromagno

quincunx:REST API Client for the 'PGS' Catalog

Programmatic access to the 'PGS' Catalog. This package provides easy access to 'PGS' Catalog data by accessing the REST API <https://www.pgscatalog.org/rest/>.

Maintained by Ramiro Magno. Last updated 3 years ago.

ebi gwas polygenic-risk-scores polygenic-scores

14 stars 3.10 score 18 scripts

promidat

discoveR:Exploratory Data Analysis System

Performs an exploratory data analysis through a 'shiny' interface. It includes basic methods such as the mean, median, mode, normality test, among others. It also includes clustering techniques such as Principal Components Analysis, Hierarchical Clustering and the K-Means Method.

Maintained by Oldemar Rodriguez. Last updated 2 years ago.

3 stars 3.03 score 18 scripts

learnitr

learnitgrid:Manage Rubrics or Assessment Grids for GitHub Repositories

Create and manage semi-automatically rubrics to assess GitHub projects (R scripts, R Markdown or Quarto files). Create directed projects where students have to complete documents and submit them to GitHub (classroom) so that they are evaluated using the rubric (or assessment grid).

Maintained by Philippe Grosjean. Last updated 10 months ago.

learning project rubric

1 stars 3.00 score 7 scripts

susantohp

irtawsi:Items Response Theory Analysis with Steps and Interpretation

Dichotomous and polytomous data analysis and their scoring using the unidimensional Item Response Theory model (Chalmers (2012) <doi:10.18637/jss.v048.i06>) with user-friendly graphic User Interface. Suitable for beginners who are learning item response theory.

Maintained by Hari Purnomo Susanto. Last updated 9 months ago.

1 stars 3.00 score 1 scripts

vimc

dettl:Data Extract, Transform, Test and Load

Data extract, transform, test and load tool for sanitising your workflow.

Maintained by Robert Ashton. Last updated 2 years ago.

1 stars 3.00 score 1 scripts

mrcieu

CheckSumStats:CheckSumStats

CheckSumStats is an R package for checking the accuracy of meta- and summary-data from genome-wide association studies (GWAS) prior to their use in post-GWAS applications. For example, the package provides tools for checking that the reported effect allele and effect allele frequency columns are correct. It also checks for possible issues in the reported effect sizes that might introduce bias into downstream analyses.

Maintained by Philip Haycock. Last updated 2 years ago.

8 stars 3.00 score 25 scripts

poissonconsulting

shinywqbench:R Shiny App to Calculates Aquatic Life Benchmarks

This package is the user interface to the wqbench R package and allows users to easily access standardized ecotoxicology data for thousands of chemicals. Either a SSD or deterministic method is used to determine the critical toxicity value and assessment factors to compute the aquatic life water quality benchmark for a compound.

Maintained by Angeline Tillmanns. Last updated 2 months ago.

2.95 score 2 scripts

jpearson0525

micromapST:Linked Micromap Plots for U. S. and Other Geographic Areas

Provides the users with the ability to quickly create linked micromap plots for a collection of geographic areas. Linked micromap plots are visualizations of geo-referenced data that link statistical graphics to an organized series of small maps or graphic images. The Help description contains examples of how to use the 'micromapST' function. Contained in this package are border group datasets to support creating linked micromap plots for the 50 U.S. states and District of Columbia (51 areas), the U. S. 20 Seer Registries, the 105 counties in the state of Kansas, the 62 counties of New York, the 24 counties of Maryland, the 29 counties of Utah, the 32 administrative areas in China, the 218 administrative areas in the UK and Ireland (for testing only), the 25 districts in the city of Seoul South Korea, and the 52 counties on the Africa continent. A border group dataset contains the boundaries related to the data level areas, a second layer boundaries, a top or third layer boundary, a parameter list of run options, and a cross indexing table between area names, abbreviations, numeric identification and alias matching strings for the specific geographic area. By specifying a border group, the package create linked micromap plots for any geographic region. The user can create and provide their own border group dataset for any area beyond the areas contained within the package. In version 3.0.0, the 'BuildBorderGroup' function was upgraded to not use the retiring 'maptools', 'rgdal', and 'rgeos' packages. References: Carr and Pickle, Chapman and Hall/CRC, Visualizing Data Patterns with Micromaps, CRC Press, 2010. Pickle, Pearson, and Carr (2015), micromapST: Exploring and Communicating Geospatial Patterns in US State Data., Journal of Statistical Software, 63(3), 1-25., <https://www.jstatsoft.org/v63/i03/>. Copyrighted 2013, 2014, 2015, 2016, 2022, 2023, 2024, and 2025 by Carr, Pearson and Pickle.

Maintained by Jim Pearson. Last updated 1 months ago.

2.80 score 21 scripts

metagenlab

zAMPExplorer:A Versatile Shiny App for Microbiota Profiling in Clinical Microbiology

A Shiny web application offering a user-friendly, accessible, and reproducible platform for downstream analysis of 16S rRNA-based metagenomics data. Key features include quality control visualizations (e.g., rarefaction curves), community composition plots, and statistical analyses for alpha- and beta-diversity. The app integrates advanced features like community typing with Dirichlet multinomial modeling (DMM) and metadata-driven redundancy analysis (RDA) to explore microbial associations with clinical and experimental variables.

Maintained by Sedreh Nassirnia. Last updated 3 months ago.

shinyapps statisticalmethod metagenomics visualization sequencing microbiome

2.78 score 2 scripts

uzh-peg

dmdScheme:Domain Specific MetaData Scheme

Forms the core for developing own domain specific metadata schemes. It contains the basic functionality needed for all metadata schemes based on the 'dmdScheme'. See R.M. Krug and O.L. Petchey (2019) <DOI:10.5281/zenodo.3581970>.

Maintained by Rainer M. Krug. Last updated 3 years ago.

metadata-scheme

2 stars 2.78 score 15 scripts

pedrocava

basedosdados:'Base Dos Dados' R Client

An R interface to the 'Base dos Dados' API <https:basedosdados.github.io/mais/py_reference_api/>). Authenticate your project, query our tables, save data to disk and memory, all from R.

Maintained by Pedro Cavalcante. Last updated 2 years ago.

2.70 score 101 scripts

jessekps

dextergui:A Graphical User Interface for Dexter

Classical Test and Item analysis, Item Response analysis and data management for educational and psychological tests.

Maintained by Jesse Koops. Last updated 3 years ago.

2.70 score 6 scripts

ccasement

DistPlotter:A Graphical User Interface for Plotting Common Univariate Distributions

Package including an interactive Shiny application for plotting common univariate distributions.

Maintained by Christopher Casement. Last updated 2 years ago.

2.70 score

pdparker

cloudstoR:Simplifies Access to Cloudstor API

Access Cloudstor via their WebDAV API. This package can read, write, and navigate Cloudstor from R.

Maintained by Taren Sanders. Last updated 3 years ago.

1 stars 2.70 score 7 scripts

ccasement

NormalityAssessment:A Graphical User Interface for Testing Normality Visually

Package including an interactive Shiny application for testing normality visually.

Maintained by Christopher Casement. Last updated 2 years ago.

2.70 score

medhat-mahmoud

PhenoSpectra:Multispectral Data Analysis and Visualization

Provides tools for processing, analyzing, and visualizing spectral data collected from 3D laser-based scanning systems. Supports applications in agriculture, forestry, environmental monitoring, industrial quality control, and biomedical research. Enables evaluation of plant growth, productivity, resource efficiency, disease management, and pest monitoring. Includes statistical methods for extracting insights from multispectral and hyperspectral data and generating publication-ready visualizations. See Zieschank & Junker (2023) <doi:10.3389/fpls.2023.1141554> and Saric et al. (2022) <doi:10.1016/J.TPLANTS.2021.12.003> for related work.

Maintained by Medhat Mahmoud. Last updated 24 days ago.

2.70 score

dnme-minturdep

evyth:Herramientas para el Procesamiento de la Encuesta de Turismo y Vivienda de los Hogares (EVyTH)

El paquete provee herramientas para facilitar el trabajo con la base de microdatos de la Encuesta de Turismo y Vivienda de los Hogares (EVyTH), operativo continuo admisnitrado por la Dirección Nacional de Mercados y Estadísticas (DNMyE).

Maintained by Pablo Tiscornia. Last updated 2 years ago.

argentina encuestas estadistica turismo

2.65 score 7 scripts 1 dependents

promidat

predictoR:Predictive Data Analysis System

Perform a supervised data analysis on a database through a 'shiny' graphical interface. It includes methods such as K-Nearest Neighbors, Decision Trees, ADA Boosting, Extreme Gradient Boosting, Random Forest, Neural Networks, Deep Learning, Support Vector Machines and Bayesian Methods.

Maintained by Oldemar Rodriguez. Last updated 1 years ago.

1 stars 2.60 score 3 scripts

pik-piam

edgeTrpLib:Helper functions for EDGE transport calculations

This package is highly specialized and created solely to not duplicate helper functions.

Maintained by Alois Dirnaichner. Last updated 3 years ago.

2.54 score 5 scripts

pik-piam

regressionworlddata:Regression analysis based on global datasets

Model estimates parameters of model functions.

Maintained by Benjamin Leon Bodirsky. Last updated 10 months ago.

2.48 score

chriscpritchard

PRISMA2020:Make Interactive 'PRISMA' Flow Diagrams

Systematic reviews should be described in a high degree of methodological detail. The 'PRISMA' Statement calls for a high level of reporting detail in systematic reviews and meta-analyses. An integral part of the methodological description of a review is a flow diagram. This package produces an interactive flow diagram that conforms to the 'PRISMA2020' preprint. When made interactive, the reader/user can click on each box and be directed to another website or file online (e.g. a detailed description of the screening methods, or a list of excluded full texts), with a mouse-over tool tip that describes the information linked to in more detail. Interactive versions can be saved as HTML files, whilst static versions for inclusion in manuscripts can be saved as HTML, PDF, PNG, SVG, PS or WEBP files.

Maintained by Chris Pritchard. Last updated 2 years ago.

1 stars 2.46 score 29 scripts

oteros

AeRobiology:A Computational Tool for Aerobiological Data

Different tools for managing databases of airborne particles, elaborating the main calculations and visualization of results. In a first step, data are checked using tools for quality control and all missing gaps are completed. Then, the main parameters of the pollen season are calculated and represented graphically. Multiple graphical tools are available: pollen calendars, phenological plots, time series, tendencies, interactive plots, abundance plots...

Maintained by "Jose Oteros". Last updated 6 years ago.

1 stars 2.46 score 29 scripts

bristol-vaccine-centre

avoncap:AvonCap Study Analysis

A WIP set of functions allowing data load, wrangling of the AvonCap data set.

Maintained by Rob Challen. Last updated 4 months ago.

2.34 score 11 scripts

cran

DCEtool:Efficient and Accessible Discrete Choice Experiments

Design, conduct and analyze 'DCEs' from a virtual interface in shiny. Reference: Perez-Troncoso, D. (2022) <https://github.com/danielpereztr/DCEtool>.

Maintained by Daniel Perez Troncoso. Last updated 2 years ago.

2 stars 2.30 score

pr2database

metapr2:Eukaryotic 18S rRNA metabarcode database

Provides an interface to the metaPR2 database (current version = 1.0) which contains eukaryotic 18S rRNA metabarcodes. Many options for selecting samples are provided. Data can be displayed as maps, barplots, treemaps. Data can be searched and downloaded. See https://pr2-database.org for more information.

Maintained by Daniel Vaulot. Last updated 1 years ago.

18s-rrna metabarcoding shiny-apps

3 stars 2.18 score

stijnbpeeters

MHQoL:Mental Health Quality of Life Toolkit

Transforms, calculates, and presents results from the Mental Health Quality of Life Questionnaire (MHQoL), a measure of health-related quality of life for individuals with mental health conditions. Provides scoring functions, summary statistics, and visualization tools to facilitate interpretation. For more details see van Krugten et al.(2022) <doi:10.1007/s11136-021-02935-w>.

Maintained by Stijn Peeters. Last updated 9 days ago.

2.18 score

pik-piam

mrvalidnitrogen:madrat data preparation for validation purposes of nitrogen budgets

Package contains routines to prepare data for validation exercises.

Maintained by Benjamin Leon Bodirsky. Last updated 1 years ago.

2.18 score 1 scripts

cran

PSS.Health:Power and Sample Size for Health Researchers via Shiny

Power and Sample Size for Health Researchers is a Shiny application that brings together a series of functions related to sample size and power calculations for common analysis in the healthcare field. There are functionalities to calculate the power, sample size to estimate or test hypotheses for means and proportions (including test for correlated groups, equivalence, non-inferiority and superiority), association, correlations coefficients, regression coefficients (linear, logistic, gamma, and Cox), linear mixed model, Cronbach's alpha, interobserver agreement, intraclass correlation coefficients, limit of agreement on Bland-Altman plots, area under the curve, sensitivity and specificity incorporating the prevalence of disease. You can also use the online version at <https://hcpa-unidade-bioestatistica.shinyapps.io/PSS_Health/>.

Maintained by Rogério Boff Borges. Last updated 3 months ago.

2.00 score

nirmalaruban

geneNR:Automated Gene Identification for Post-GWAS Analysis

Facilitates the post-Genome Wide Association Studies (GWAS) analysis of identifying candidate genes within user-defined search window, based on the identified Single Nucleotide Polymorphisms (SNPs) as given by Mazumder AK (2024) <doi:10.1038/s41598-024-66903-3>. It supports candidate gene analysis for wheat and rice. Just import your GWAS result as explained in the sample_data file and the function does all the manual search and retrieve candidate genes for you, while exporting the results into ready-to-use output.

Maintained by Rajamani Nirmalaruban. Last updated 18 days ago.

2.00 score

ipbes-data

IPBES.R:Tool functions used by the Data and Knowledge Technical Support Unit of IPBES

More about what it does (maybe more than one line).

Maintained by Rainer M. Krug. Last updated 1 years ago.

2 stars 2.00 score 10 scripts

pik-piam

mrwaste:Analysis and Projection of Municipal Solid Waste

Reads in waste data from What a Waste 2.0 and uses brms package to create future regressions based on GDP.

Maintained by David Meng-Chuen Chen. Last updated 10 months ago.

2.00 score

elakkkk

istat:Download and Manipulate Data from Istat

Download data from Istat (Italian Institute of Statistics) database, both old and new provider (respectively, <http://dati.istat.it/> and <https://esploradati.istat.it/databrowser/>). Additional functions for manipulating data are provided. Moreover, a 'shiny' application called 'shinyIstat' can be used to search, download and filter datasets in an easier way.

Maintained by Elena Gradi. Last updated 7 months ago.

2.00 score 2 scripts

cran

tRigon:Toolbox for Integrative Pathomics Analysis

Processing and analysis of pathomics, omics and other medical datasets. 'tRigon' serves as a toolbox for descriptive and statistical analysis, correlations, plotting and many other methods for exploratory analysis of high-dimensional datasets.

Maintained by David Hoelscher. Last updated 7 months ago.

2.00 score

mrc-ide

naomi.utils:Utility Functions For Naomi Datasets

This package contains utility functions for creating and manipulating datasets for the Naomi model and related projects.

Maintained by Jeffrey Eaton. Last updated 4 days ago.

1 stars 1.94 score 11 scripts

patauchi

heterogen:Spatial Functions for Heterogeneity and Climate Variability

A comprehensive suite of spatial functions created to analyze and assess data heterogeneity and climate variability in spatial datasets. This package is specifically designed to address the challenges associated with characterizing and understanding complex spatial patterns in environmental and climate-related data.

Maintained by P.Joser Atauchi. Last updated 2 years ago.

cpp

1.70 score

lcbc-uio

eprimeParser:LCBC E-prime data processing pipeline

This package contains functions to process the eprime data for LCBC. The functions are adaptations of scripts James Michael Roe made, that Athanasia Monika Mowinckel converted.

Maintained by Athanasia Mo Mowinckel. Last updated 5 years ago.

1.70 score 1 scripts

aalborg-intelligence

aai:Functions, apps, exercises and other R related stuff used in "AI - Aalborg Intelligence"

Functions, apps, exercises and other R related stuff used in "AI - Aalborg Intelligence" The project (2020 - 2026) is supported by the Novo Nordisk Foundation to develop teaching material to be used in the Danish highschools to strengthen the understanding of AI while explaining how basic maths is used in the some popular AI methods.

Maintained by Ege Rubak. Last updated 2 years ago.

1 stars 1.70 score 1 scripts

pik-piam

mrdieter:MadRat DIETER Input Data Package

The mrdieter package contains data preprocessing for the DIETER model.

Maintained by Falk Benke. Last updated 3 years ago.

1.70 score

pik-piam

blackmagicc:MAgPIE-MAGICC Integration

Enables MAgPIE runs to project global surface area temperatures with MAGICC, using reference REMIND scenarios to represent emissions from the energy sector.

Maintained by Michael Crawford. Last updated 9 months ago.

1 stars 1.70 score 3 scripts

cran

wearables:Tools to Read and Convert Wearables Data

Package to read Empatica E4 data, perform several transformations, perform signal processing and analyses, including batch analyses.

Maintained by Peter de Looff. Last updated 3 years ago.

1 stars 1.70 score

calderonsamuel

appReporteAvance:Reporte de avances de oficina

Las personas de la oficina usan esta app para reportar el estado de avance de sus actividades específicas.

Maintained by Samuel Calderon. Last updated 1 years ago.

1 stars 1.70 score 2 scripts

dnme-minturdep

d4t4tur:Herramientas para el Trabajo con Datos y Análisis Turístico de Argentina

Manera sencilla de instalar y cargar los paquetes de 'dnme-minturdep'.

Maintained by Juan Pablo Ruiz Nicolini. Last updated 3 years ago.

argentina estadisticas turismo openjdk

1.70 score 6 scripts

alkabenawra

MDMAPR:Molecular Detection Mapping and Analysis Platform

Runs a Shiny web application that merges raw 'qPCR' fluorescence data with related metadata to visualize species presence/absence detection patterns and assess data quality. The application calculates threshold values from raw fluorescence data using a method based on the second derivative method, Luu-The et al (2005) <doi:10.2144/05382RR05>, and utilizes the ‘chipPCR’ package by Rödiger, Burdukiewicz, & Schierack (2015) <doi:10.1093/bioinformatics/btv205> to calculate Cq values. The application has the ability to connect to a custom developed MySQL database to populate the applications interface. The application allows users to interact with visualizations such as a dynamic map, amplification curves and standard curves, that allow for zooming and/or filtering. It also enables the generation of customized exportable reports based on filtered mapping data.

Maintained by Alka Benawra. Last updated 4 years ago.

1.70 score 1 scripts

isubirana

ImportExport:Import and Export Data

Import and export data from the most common statistical formats by using R functions that guarantee the least loss of the data information, giving special attention to the date variables and the labelled ones.

Maintained by Isaac Subirana. Last updated 5 years ago.

1.45 score 28 scripts

cran

deaR:Conventional and Fuzzy Data Envelopment Analysis

Set of functions for Data Envelopment Analysis. It runs both classic and fuzzy DEA models. See: Banker, R.; Charnes, A.; Cooper, W.W. (1984). <doi:10.1287/mnsc.30.9.1078>, Charnes, A.; Cooper, W.W.; Rhodes, E. (1978). <doi:10.1016/0377-2217(78)90138-8> and Charnes, A.; Cooper, W.W.; Rhodes, E. (1981). <doi:10.1287/mnsc.27.6.668>.

Maintained by Vicente Bolos. Last updated 2 years ago.

1.41 score