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r-onesamplemr
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public |
Useful functions for one-sample (individual level data) Mendelian randomization and instrumental variable analyses. The package includes implementations of; the Sanderson and Windmeijer (2016) <doi:10.1016/j.jeconom.2015.06.004> conditional F-statistic, the multiplicative structural mean model Hernán and Robins (2006) <doi:10.1097/01.ede.0000222409.00878.37>, and two-stage predictor substitution and two-stage residual inclusion estimators explained by Terza et al. (2008) <doi:10.1016/j.jhealeco.2007.09.009>.
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2025-09-24 |
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r-smoother
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public |
A collection of methods for smoothing numerical data, commencing with a port of the Matlab gaussian window smoothing function. In addition, several functions typically used in smoothing of financial data are included.
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2025-09-24 |
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gradio-client
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public |
Python library for easily interacting with trained machine learning models
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2025-09-24 |
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pz-rail-base
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public |
Base classes and core code for Redshift Assessment Infrastructure Layers
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2025-09-24 |
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r-tibbletime
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public |
Built on top of the 'tibble' package, 'tibbletime' is an extension that allows for the creation of time aware tibbles. Some immediate advantages of this include: the ability to perform time-based subsetting on tibbles, quickly summarising and aggregating results by time periods, and creating columns that can be used as 'dplyr' time-based groups.
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2025-09-24 |
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edalize
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public |
Edalize is a library for interfacing EDA tools, primarily for FPGA development
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2025-09-24 |
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r-sirius-ms
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public |
RSirius: R library for SIRIUS MS/MS analyses software.
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2025-09-24 |
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r-whirl
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Logging of scripts suitable for clinical trials using 'Quarto' to create nice human readable logs. 'whirl' enables execution of scripts in batch, while simultaneously creating logs for the execution of each script, and providing an overview summary log of the entire batch execution.
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2025-09-24 |
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r-vcr
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Record test suite 'HTTP' requests and replays them during future runs. A port of the Ruby gem of the same name (<https://github.com/vcr/vcr/>). Works by hooking into the 'webmockr' R package for matching 'HTTP' requests by various rules ('HTTP' method, 'URL', query parameters, headers, body, etc.), and then caching real 'HTTP' responses on disk in 'cassettes'. Subsequent 'HTTP' requests matching any previous requests in the same 'cassette' use a cached 'HTTP' response.
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2025-09-24 |
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r-tidycdisc
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public |
Provides users a quick exploratory dive into common visualizations without writing a single line of code given the users data follows the Analysis Data Model (ADaM) standards put forth by the Clinical Data Interchange Standards Consortium (CDISC) <https://www.cdisc.org>. Prominent modules/ features of the application are the Table Generator, Population Explorer, and the Individual Explorer. The Table Generator allows users to drag and drop variables and desired statistics (frequencies, means, ANOVA, t-test, and other summary statistics) into bins that automagically create stunning tables with validated information. The Population Explorer offers various plots to visualize general trends in the population from various vantage points. Plot modules currently include scatter plot, spaghetti plot, box plot, histogram, means plot, and bar plot. Each plot type allows the user to plot uploaded variables against one another, and dissect the population by filtering out certain subjects. Last, the Individual Explorer establishes a cohesive patient narrative, allowing the user to interact with patient metrics (params) by visit or plotting important patient events on a timeline. All modules allow for concise filtering & downloading bulk outputs into html or pdf formats to save for later.
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2025-09-24 |
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r-eicu.demo
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public |
The eICU Collaborative Research Database is a multi-center
database comprised of deidentified health data for over 200,000 admissions
to ICUs across the United States between 2014-2015. The database includes
vital sign measurements, care plan documentation, severity of illness
measures, diagnosis information, and treatment information. An open-access
subset of eICU, comprising 2,500 unit stays selected from 20 of the larger
hospitals in the eICU Collaborative Research Database is distributed under
the Open Database License (ODbL) v1.0 and is provided as R package for
convenience.
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2025-09-24 |
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r-simdesign
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public |
Provides tools to safely and efficiently organize and execute Monte Carlo simulation experiments in R. The package controls the structure and back-end of Monte Carlo simulation experiments by utilizing a generate-analyse-summarise workflow. The workflow safeguards against common simulation coding issues, such as automatically re-simulating non-convergent results, prevents inadvertently overwriting simulation files, catches error and warning messages during execution, implicitly supports parallel processing with high-quality random number generation, and provides tools for managing high-performance computing (HPC) array jobs submitted to schedulers such as SLURM. For a pedagogical introduction to the package see Sigal and Chalmers (2016) <doi:10.1080/10691898.2016.1246953>. For a more in-depth overview of the package and its design philosophy see Chalmers and Adkins (2020) <doi:10.20982/tqmp.16.4.p248>.
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2025-09-24 |
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r-sparklyr.nested
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public |
A 'sparklyr' extension adding the capability to work easily with nested data.
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2025-09-24 |
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r-mrfdepth
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public |
Tools to compute depth measures and implementations of related tasks such as outlier detection, data exploration and classification of multivariate, regression and functional data.
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2025-09-24 |
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r-knn.covertree
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public |
Similarly to the 'FNN' package, this package allows calculation of the k nearest neighbors (kNN) of a data matrix. The implementation is based on cover trees introduced by Alina Beygelzimer, Sham Kakade, and John Langford (2006) <doi:10.1145/1143844.1143857>.
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2025-09-24 |
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r-sparkr
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Provides an R Front end for 'Apache Spark' <https://spark.apache.org>.
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2025-09-24 |
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r-quickmatch
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Provides functions for constructing near-optimal generalized full matching. Generalized full matching is an extension of the original full matching method to situations with more intricate study designs. The package is made with large data sets in mind and derives matches more than an order of magnitude quicker than other methods.
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2025-09-24 |
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r-shinycyjs
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Create Interactive Graph (Network) Visualizations. 'shinyCyJS' can be used in 'Shiny' apps or viewed from 'Rstudio' Viewer. 'shinyCyJS' includes API to build Graph model like node or edge with customized attributes for R. 'shinyCyJS' is built with 'cytoscape.js' and 'htmlwidgets' R package.
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2025-09-24 |
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r-mrmlm
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Conduct multi-locus genome-wide association study under the framework of multi-locus random-SNP-effect mixed linear model (mrMLM). First, each marker on the genome is scanned. Bonferroni correction is replaced by a less stringent selection criterion for significant test. Then, all the markers that are potentially associated with the trait are included in a multi-locus genetic model, their effects are estimated by empirical Bayes, and all the nonzero effects were further identified by likelihood ratio test for significant QTL. The program may run on a desktop or laptop computers. If marker genotypes in association mapping population are almost homozygous, these methods in this software are very effective. If there are many heterozygous marker genotypes, the IIIVmrMLM software is recommended. Wen YJ, Zhang H, Ni YL, Huang B, Zhang J, Feng JY, Wang SB, Dunwell JM, Zhang YM, Wu R (2018, <doi:10.1093/bib/bbw145>), and Li M, Zhang YW, Zhang ZC, Xiang Y, Liu MH, Zhou YH, Zuo JF, Zhang HQ, Chen Y, Zhang YM (2022, <doi:10.1016/j.molp.2022.02.012>).
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2025-09-24 |
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r-nhmmfdr
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public |
The NHMMfdr package implements the non-homogeneous Hidden Markov Model based FDR control as described in Kuan et al., 2011 for multiple comparison adjustment under dependence. It allows for prior information to be incorporated in the model to improve detection of significant tests.
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2025-09-24 |
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r-rcompendium
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public |
Makes easier the creation of R package or research compendium (i.e. a predefined files/folders structure) so that users can focus on the code/analysis instead of wasting time organizing files. A full ready-to-work structure is set up with some additional features: version control, remote repository creation, CI/CD configuration (check package integrity under several OS, test code with 'testthat', and build and deploy website using 'pkgdown'). This package heavily relies on the R packages 'devtools' and 'usethis' and follows recommendations made by Wickham H. (2015) <ISBN:9781491910597> and Marwick B. et al. (2018) <doi:10.7287/peerj.preprints.3192v2>.
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2025-09-24 |
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r-rnames
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Recursive display of names and paths of all the items nested within sublists of a list object.
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2025-09-24 |
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r-rathena
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public |
Designed to be compatible with the R package 'DBI' (Database Interface) when connecting to Amazon Web Service ('AWS') Athena <https://aws.amazon.com/athena/>. To do this 'Python' 'Boto3' Software Development Kit ('SDK') <https://boto3.amazonaws.com/v1/documentation/api/latest/index.html> is used as a driver.
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2025-09-24 |
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r-ga
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public |
Flexible general-purpose toolbox implementing genetic algorithms (GAs) for stochastic optimisation. Binary, real-valued, and permutation representations are available to optimize a fitness function, i.e. a function provided by users depending on their objective function. Several genetic operators are available and can be combined to explore the best settings for the current task. Furthermore, users can define new genetic operators and easily evaluate their performances. Local search using general-purpose optimisation algorithms can be applied stochastically to exploit interesting regions. GAs can be run sequentially or in parallel, using an explicit master-slave parallelisation or a coarse-grain islands approach.
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2025-09-24 |
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r-pharmaverseadam
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A set of Analysis Data Model (ADaM) datasets constructed using the Study Data Tabulation Model (SDTM) datasets contained in the 'pharmaversesdtm' package and the template scripts from the 'admiral' family of packages. ADaM dataset specifications are described in the CDISC ADaM implementation guide, accessible by creating a free account on <https://www.cdisc.org/>.
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2025-09-24 |
