Showing 36 of total 36 results (show query)
harrelfe
Hmisc:Harrell Miscellaneous
Contains many functions useful for data analysis, high-level graphics, utility operations, functions for computing sample size and power, simulation, importing and annotating datasets, imputing missing values, advanced table making, variable clustering, character string manipulation, conversion of R objects to LaTeX and html code, recoding variables, caching, simplified parallel computing, encrypting and decrypting data using a safe workflow, general moving window statistical estimation, and assistance in interpreting principal component analysis.
Maintained by Frank E Harrell Jr. Last updated 5 days ago.
209 stars 17.64 score 17k scripts 750 dependents
dcomtois
summarytools:Tools to Quickly and Neatly Summarize Data
Data frame summaries, cross-tabulations, weight-enabled frequency tables and common descriptive (univariate) statistics in concise tables available in a variety of formats (plain ASCII, Markdown and HTML). A good point-of-entry for exploring data, both for experienced and new R users.
Maintained by Dominic Comtois. Last updated 4 days ago.
descriptive-statisticsfrequency-tablehtml-reportmarkdownpanderpandocpandoc-markdownrmarkdownrstudio
527 stars 14.62 score 2.9k scripts 6 dependents
hughjonesd
huxtable:Easily Create and Style Tables for LaTeX, HTML and Other Formats
Creates styled tables for data presentation. Export to HTML, LaTeX, RTF, 'Word', 'Excel', and 'PowerPoint'. Simple, modern interface to manipulate borders, size, position, captions, colours, text styles and number formatting. Table cells can span multiple rows and/or columns. Includes a 'huxreg' function for creation of regression tables, and 'quick_*' one-liners to print data to a new document.
Maintained by David Hugh-Jones. Last updated 26 days ago.
htmlhuxtablelatexmicrosoft-wordpowerpointreproducible-researchtables
323 stars 13.93 score 1.9k scripts 16 dependents
andrie
ggdendro:Create Dendrograms and Tree Diagrams Using 'ggplot2'
This is a set of tools for dendrograms and tree plots using 'ggplot2'. The 'ggplot2' philosophy is to clearly separate data from the presentation. Unfortunately the plot method for dendrograms plots directly to a plot device without exposing the data. The 'ggdendro' package resolves this by making available functions that extract the dendrogram plot data. The package provides implementations for 'tree', 'rpart', as well as diana and agnes (from 'cluster') diagrams.
Maintained by Andrie de Vries. Last updated 4 months ago.
86 stars 13.54 score 3.9k scripts 62 dependents
asgr
imager:Image Processing Library Based on 'CImg'
Fast image processing for images in up to 4 dimensions (two spatial dimensions, one time/depth dimension, one colour dimension). Provides most traditional image processing tools (filtering, morphology, transformations, etc.) as well as various functions for easily analysing image data using R. The package wraps 'CImg', <http://cimg.eu>, a simple, modern C++ library for image processing.
Maintained by Aaron Robotham. Last updated 6 days ago.
17 stars 13.53 score 2.4k scripts 44 dependents
r-forge
xtable:Export Tables to LaTeX or HTML
Coerce data to LaTeX and HTML tables.
Maintained by David Scott. Last updated 5 years ago.
13.25 score 26k scripts 2.3k dependents
appsilon
shiny.semantic:Semantic UI Support for Shiny
Creating a great user interface for your Shiny apps can be a hassle, especially if you want to work purely in R and don't want to use, for instance HTML templates. This package adds support for a powerful UI library Fomantic UI - <https://fomantic-ui.com/> (before Semantic). It also supports universal UI input binding that works with various DOM elements.
Maintained by Jakub Nowicki. Last updated 12 months ago.
appsilonfomantic-uirhinoversesemanticsemantic-componentssemantic-uishiny
506 stars 13.00 score 586 scripts 3 dependents
data-cleaning
validate:Data Validation Infrastructure
Declare data validation rules and data quality indicators; confront data with them and analyze or visualize the results. The package supports rules that are per-field, in-record, cross-record or cross-dataset. Rules can be automatically analyzed for rule type and connectivity. Supports checks implied by an SDMX DSD file as well. See also Van der Loo and De Jonge (2018) <doi:10.1002/9781118897126>, Chapter 6 and the JSS paper (2021) <doi:10.18637/jss.v097.i10>.
Maintained by Mark van der Loo. Last updated 26 days ago.
419 stars 12.39 score 448 scripts 8 dependents
r-causal
ggdag:Analyze and Create Elegant Directed Acyclic Graphs
Tidy, analyze, and plot directed acyclic graphs (DAGs). 'ggdag' is built on top of 'dagitty', an R package that uses the 'DAGitty' web tool (<https://dagitty.net/>) for creating and analyzing DAGs. 'ggdag' makes it easy to tidy and plot 'dagitty' objects using 'ggplot2' and 'ggraph', as well as common analytic and graphical functions, such as determining adjustment sets and node relationships.
Maintained by Malcolm Barrett. Last updated 8 months ago.
causal-inferencedagggplot-extension
443 stars 11.78 score 1.8k scripts 5 dependents
r-lib
gmailr:Access the 'Gmail' 'RESTful' API
An interface to the 'Gmail' 'RESTful' API. Allows access to your 'Gmail' messages, threads, drafts and labels.
Maintained by Jennifer Bryan. Last updated 1 years ago.
230 stars 11.50 score 289 scripts 1 dependents
eddelbuettel
RProtoBuf:R Interface to the 'Protocol Buffers' 'API' (Version 2 or 3)
Protocol Buffers are a way of encoding structured data in an efficient yet extensible format. Google uses Protocol Buffers for almost all of its internal 'RPC' protocols and file formats. Additional documentation is available in two included vignettes one of which corresponds to our 'JSS' paper (2016, <doi:10.18637/jss.v071.i02>. A sufficiently recent version of 'Protocol Buffers' library is required; currently version 3.3.0 from 2017 is the stated minimum.
Maintained by Dirk Eddelbuettel. Last updated 14 days ago.
c-plus-plusprotocol-buffersprotobufcpp
73 stars 11.44 score 126 scripts 21 dependents
benjaminrich
table1:Tables of Descriptive Statistics in HTML
Create HTML tables of descriptive statistics, as one would expect to see as the first table (i.e. "Table 1") in a medical/epidemiological journal article.
Maintained by Benjamin Rich. Last updated 2 years ago.
81 stars 11.17 score 1.5k scripts 6 dependents
dreamrs
apexcharter:Create Interactive Chart with the JavaScript 'ApexCharts' Library
Provides an 'htmlwidgets' interface to 'apexcharts.js'. 'Apexcharts' is a modern JavaScript charting library to build interactive charts and visualizations with simple API. 'Apexcharts' examples and documentation are available here: <https://apexcharts.com/>.
Maintained by Victor Perrier. Last updated 1 months ago.
144 stars 8.43 score 247 scripts
dusadrian
declared:Functions for Declared Missing Values
A zero dependency package containing functions to declare labels and missing values, coupled with associated functions to create (weighted) tables of frequencies and various other summary measures. Some of the base functions have been rewritten to make use of the specific information about the missing values, most importantly to distinguish between empty and declared NA values. Some functions have similar functionality with the corresponding ones from packages "haven" and "labelled". The aim is to ensure as much compatibility as possible with these packages, while offering an alternative in the objects of class "declared".
Maintained by Adrian Dusa. Last updated 6 months ago.
6 stars 8.17 score 24 scripts 7 dependents
rapporter
rapportools:Miscellaneous (Stats) Helper Functions with Sane Defaults for Reporting
Helper functions that act as wrappers to more advanced statistical methods with the advantage of having sane defaults for quick reporting.
Maintained by Gergely Daróczi. Last updated 29 days ago.
8 stars 7.65 score 186 scripts 11 dependents
dgerbing
lessR:Less Code, More Results
Each function replaces multiple standard R functions. For example, two function calls, Read() and CountAll(), generate summary statistics for all variables in the data frame, plus histograms and bar charts as appropriate. Other functions provide for summary statistics via pivot tables, a comprehensive regression analysis, ANOVA and t-test, visualizations including the Violin/Box/Scatter plot for a numerical variable, bar chart, histogram, box plot, density curves, calibrated power curve, reading multiple data formats with the same function call, variable labels, time series with aggregation and forecasting, color themes, and Trellis (facet) graphics. Also includes a confirmatory factor analysis of multiple indicator measurement models, pedagogical routines for data simulation such as for the Central Limit Theorem, generation and rendering of regression instructions for interpretative output, and interactive visualizations.
Maintained by David W. Gerbing. Last updated 13 days ago.
6 stars 7.42 score 394 scripts 3 dependents
datastorm-open
rAmCharts:JavaScript Charts Tool
Provides an R interface for using 'AmCharts' Library. Based on 'htmlwidgets', it provides a global architecture to generate 'JavaScript' source code for charts. Most of classes in the library have their equivalent in R with S4 classes; for those classes, not all properties have been referenced but can easily be added in the constructors. Complex properties (e.g. 'JavaScript' object) can be passed as named list. See examples at <https://datastorm-open.github.io/introduction_ramcharts/> and <https://www.amcharts.com/> for more information about the library. The package includes the free version of 'AmCharts' Library. Its only limitation is a small link to the web site displayed on your charts. If you enjoy this library, do not hesitate to refer to this page <https://www.amcharts.com/online-store/> to purchase a licence, and thus support its creators and get a period of Priority Support. See also <https://www.amcharts.com/about/> for more information about 'AmCharts' company.
Maintained by Benoit Thieurmel. Last updated 3 months ago.
49 stars 7.17 score 153 scripts 4 dependents
ips-lmu
emuR:Main Package of the EMU Speech Database Management System
Provide the EMU Speech Database Management System (EMU-SDMS) with database management, data extraction, data preparation and data visualization facilities. See <https://ips-lmu.github.io/The-EMU-SDMS-Manual/> for more details.
Maintained by Markus Jochim. Last updated 1 years ago.
24 stars 6.89 score 135 scripts 1 dependents
bioc
SIAMCAT:Statistical Inference of Associations between Microbial Communities And host phenoTypes
Pipeline for Statistical Inference of Associations between Microbial Communities And host phenoTypes (SIAMCAT). A primary goal of analyzing microbiome data is to determine changes in community composition that are associated with environmental factors. In particular, linking human microbiome composition to host phenotypes such as diseases has become an area of intense research. For this, robust statistical modeling and biomarker extraction toolkits are crucially needed. SIAMCAT provides a full pipeline supporting data preprocessing, statistical association testing, statistical modeling (LASSO logistic regression) including tools for evaluation and interpretation of these models (such as cross validation, parameter selection, ROC analysis and diagnostic model plots).
Maintained by Jakob Wirbel. Last updated 5 months ago.
immunooncologymetagenomicsclassificationmicrobiomesequencingpreprocessingclusteringfeatureextractiongeneticvariabilitymultiplecomparisonregression
6.72 score 147 scriptsdata-cleaning
dcmodify:Modify Data Using Externally Defined Modification Rules
Data cleaning scripts typically contain a lot of 'if this change that' type of statements. Such statements are typically condensed expert knowledge. With this package, such 'data modifying rules' are taken out of the code and become in stead parameters to the work flow. This allows one to maintain, document, and reason about data modification rules as separate entities.
Maintained by Mark van der Loo. Last updated 10 months ago.
10 stars 6.24 score 58 scripts
swissclinicaltrialorganisation
secuTrialR:Handling of Data from the Clinical Data Management System 'secuTrial'
Seamless and standardized interaction with data exported from the clinical data management system (CDMS) 'secuTrial'<https://www.secutrial.com>. The primary data export the package works with is a standard non-rectangular export.
Maintained by Alan G. Haynes. Last updated 10 months ago.
9 stars 5.91 score 15 scripts
spatial-ews
spatialwarnings:Spatial Early Warning Signals of Ecosystem Degradation
Tools to compute and assess significance of early-warnings signals (EWS) of ecosystem degradation on raster data sets. EWS are spatial metrics derived from raster data -- e.g. spatial autocorrelation -- that increase before an ecosystem undergoes a non-linear transition (Genin et al. (2018) <doi:10.1111/2041-210X.13058>).
Maintained by Alexandre Genin. Last updated 7 months ago.
catastrophiccriticalecologyindicatorspointsshiftsspacetransitionscpp
15 stars 5.32 score 46 scriptsbioc
heatmaps:Flexible Heatmaps for Functional Genomics and Sequence Features
This package provides functions for plotting heatmaps of genome-wide data across genomic intervals, such as ChIP-seq signals at peaks or across promoters. Many functions are also provided for investigating sequence features.
Maintained by Malcolm Perry. Last updated 5 months ago.
visualizationsequencematchingfunctionalgenomics
5.23 score 19 scripts 1 dependentsbioc
widgetTools:Creates an interactive tcltk widget
This packages contains tools to support the construction of tcltk widgets
Maintained by Jianhua Zhang. Last updated 5 months ago.
5.04 score 11 scripts 8 dependents
myominnoo
mStats:Medical Statistics & Epidemiological Analysis
A set of tidyverse-friendly functions for data management, calculation of epidemiological measures, statistical analysis, and table creation.
Maintained by Myo Minn Oo. Last updated 1 years ago.
data-managementepidemiological-calculationsmedical-statistics
4.98 score 16 scripts 1 dependents
psolymos
mefa:Multivariate Data Handling in Ecology and Biogeography
A framework package aimed to provide standardized computational environment for specialist work via object classes to represent the data coded by samples, taxa and segments (i.e. subpopulations, repeated measures). It supports easy processing of the data along with cross tabulation and relational data tables for samples and taxa. An object of class `mefa' is a project specific compendium of the data and can be easily used in further analyses. Methods are provided for extraction, aggregation, conversion, plotting, summary and reporting of `mefa' objects. Reports can be generated in plain text or LaTeX format. Vignette contains worked examples.
Maintained by Peter Solymos. Last updated 10 months ago.
2 stars 4.82 score 111 scripts 2 dependentsbioc
immunoClust:immunoClust - Automated Pipeline for Population Detection in Flow Cytometry
immunoClust is a model based clustering approach for Flow Cytometry samples. The cell-events of single Flow Cytometry samples are modelled by a mixture of multinominal normal- or t-distributions. The cell-event clusters of several samples are modelled by a mixture of multinominal normal-distributions aiming stable co-clusters across these samples.
Maintained by Till Soerensen. Last updated 10 days ago.
clusteringflowcytometrysinglecellcellbasedassaysimmunooncologygslcpp
4.41 score 4 scriptsbioc
SeqGSEA:Gene Set Enrichment Analysis (GSEA) of RNA-Seq Data: integrating differential expression and splicing
The package generally provides methods for gene set enrichment analysis of high-throughput RNA-Seq data by integrating differential expression and splicing. It uses negative binomial distribution to model read count data, which accounts for sequencing biases and biological variation. Based on permutation tests, statistical significance can also be achieved regarding each gene's differential expression and splicing, respectively.
Maintained by Xi Wang. Last updated 5 months ago.
sequencingrnaseqgenesetenrichmentgeneexpressiondifferentialexpressiondifferentialsplicingimmunooncology
4.34 score 11 scripts
sciviews
data.io:Read and Write Data in Different Formats
Read or write data from many different formats (tabular datasets, from statistic software ...) into R objects. Add labels and units in different languages.
Maintained by Philippe Grosjean. Last updated 11 months ago.
1 stars 4.32 score 20 scripts 7 dependentsbioc
cytofQC:Labels normalized cells for CyTOF data and assigns probabilities for each label
cytofQC is a package for initial cleaning of CyTOF data. It uses a semi-supervised approach for labeling cells with their most likely data type (bead, doublet, debris, dead) and the probability that they belong to each label type. This package does not remove data from the dataset, but provides labels and information to aid the data user in cleaning their data. Our algorithm is able to distinguish between doublets and large cells.
Maintained by Jill Lundell. Last updated 5 months ago.
2 stars 4.30 score 3 scripts
loosolab
wilson:Web-Based Interactive Omics Visualization
Tool-set of modules for creating web-based applications that use plot based strategies to visualize and analyze multi-omics data. This package utilizes the 'shiny' and 'plotly' frameworks to provide a user friendly dashboard for interactive plotting.
Maintained by Hendrik Schultheis. Last updated 4 years ago.
2 stars 4.30 score 7 scripts
jrosell
ambhtmx:ambhtmx
Build a Full-stack R App with ambiorix and htmx.
Maintained by Jordi Rosell. Last updated 6 months ago.
26 stars 3.74 score 14 scripts
kisungyou
Riemann:Learning with Data on Riemannian Manifolds
We provide a variety of algorithms for manifold-valued data, including Fréchet summaries, hypothesis testing, clustering, visualization, and other learning tasks. See Bhattacharya and Bhattacharya (2012) <doi:10.1017/CBO9781139094764> for general exposition to statistics on manifolds.
Maintained by Kisung You. Last updated 2 years ago.
10 stars 3.70 score 8 scripts
tconwell
html5:Creates Valid HTML5 Strings
Generates valid HTML tag strings for HTML5 elements documented by Mozilla. Attributes are passed as named lists, with names being the attribute name and values being the attribute value. Attribute values are automatically double-quoted. To declare a DOCTYPE, wrap html() with function doctype(). Mozilla's documentation for HTML5 is available here: <https://developer.mozilla.org/en-US/docs/Web/HTML/Element>. Elements marked as obsolete are not included.
Maintained by Timothy Conwell. Last updated 2 years ago.
1 stars 3.65 score 1 scripts 3 dependentsbioc
hypergraph:A package providing hypergraph data structures
A package that implements some simple capabilities for representing and manipulating hypergraphs.
Maintained by Bioconductor Package Maintainer. Last updated 5 months ago.
3.38 score 2 scripts 4 dependents
yusenzhang
qkerntool:Q-Kernel-Based and Conditionally Negative Definite Kernel-Based Machine Learning Tools
Nonlinear machine learning tool for classification, clustering and dimensionality reduction. It integrates 12 q-kernel functions and 15 conditional negative definite kernel functions and includes the q-kernel and conditional negative definite kernel version of density-based spatial clustering of applications with noise, spectral clustering, generalized discriminant analysis, principal component analysis, multidimensional scaling, locally linear embedding, sammon's mapping and t-Distributed stochastic neighbor embedding.
Maintained by Yusen Zhang. Last updated 6 years ago.
1 stars 2.19 score 31 scripts