ropensci-staging.r-universe.dev

[ropensci-staging] rfastlowess 5.0.0

thisisamirv@gmail.com (Amir Valizadeh) — Mon, 12 Oct 2026 17:46:36 GMT

Provides high-performance LOWESS smoothing (Locally Weighted Scatterplot Smoothing) using a 'Rust' backend. Supports various weight functions, robustness iterations, streaming/online processing, cross-validation, and uncertainty quantification. Applicable to genomic data, time series, and general-purpose smoothing tasks.

[ropensci-staging] grumpy 0.1.1.9004

hugo.gruson+r@normalesup.org (Hugo Gruson) — Mon, 12 Oct 2026 16:15:09 GMT

Lightweight way to read 'NumPy' '.npy' and '.npz' files in R. All data types supported by 'NumPy', with all sizes (converted internally to R native size), both C and 'Fortran' order, and any shape, up to an arbitrary number of dimensions, are supported.

[ropensci-staging] metasurvey.core 0.3.1

mauro.loprete@fcea.edu.uy (Mauro Loprete) — Mon, 12 Oct 2026 14:31:25 GMT

The processing engine of the 'metasurvey' ecosystem. Provides a step-based pipeline for reproducible processing of microdata from complex surveys, building on the 'survey' package for design-based estimation. Supports rotating panels with bootstrap replicate weights and a recipe system for reproducing data transformation workflows across editions of the same study.

[ropensci-staging] corila 0.1.0

armin.rauschenberger@lih.lu (Armin Rauschenberger) — Fri, 09 Oct 2026 14:22:40 GMT

Implements lasso regression (Gaussian, binomial, Poisson, and Cox) for features in heterogeneous groups (e.g., where some groups contain subgroups of correlated features), overlapping groups (i.e., where some features belong to two or more groups), and misspecified groups (i.e., where some group labels are incorrect or missing). Involves an initial ridge regression followed by a final adaptive lasso regression. Exchanges information between features according to their assumed adjacencies or their observed correlations to improve selection and predictive performance. Allows for features that can provide information on other features but must not themselves be selected (i.e., privileged information).

[ropensci-staging] tantale 0.99.0.9000

sebastien.cunnac@ird.fr (Sebastien Cunnac) — Fri, 09 Oct 2026 12:48:37 GMT

A toolkit for the study of transcription activator-like effectors (TALEs) of Xanthomonas. tell_tales() finds TALE genes in genome assemblies and can correct the frameshifts that make them hard to annotate in error-prone long-read assemblies. TALEs are held in S3 classes that record each one as a series of parts (N-terminus, repeats with their repeat-variable diresidues (RVDs), C-terminus), with methods to validate, subset, combine and plot them. TALEs are aligned repeat by repeat, compared with R implementations of the 'DisTAL' and 'FuncTAL' distances , and grouped into families by hierarchical clustering or k-medoids. Wrappers for 'AnnoTALE' , 'TALEcorrection' , 'TALVEZ' and 'PrediTALE' read their results into the same objects; the last two predict target sites in host genomes.

[ropensci-staging] GeoPressureR 3.6.3

rafnuss@gmail.com (Raphaël Nussbaumer) — Thu, 08 Oct 2026 11:46:40 GMT

R package to determine the position and trajectory of a bird based on light-weight data-logger measuring at lease atmospheric pressure.

[ropensci-staging] camtrapReport 1.0.64

eebrahimi.bio@gmail.com (Elham Ebrahimi) — Thu, 08 Oct 2026 04:09:23 GMT

Provides an extensible workflow for processing camera-trap data in the 'Camtrap DP' format and automatically generating reproducible data-status and ecological reports in HTML or PDF format. The package supports data-quality checks, ecological summaries, visualisations, maps, tables and modular report sections for wildlife-monitoring applications. Optional taxonomic enrichment queries the Global Biodiversity Information Facility Species API through 'taxize'.

[ropensci-staging] ocean3d 0.1.1.9008

hello@jmatsushiba.com (Jay Matsushiba) — Wed, 07 Oct 2026 06:42:11 GMT

Facilitates the analysis of marine habitat in 3D, enabling descriptions of habitat by depth and area. Provides tools for volume calculation, environmental extraction, and spatial overlap analysis between species ranges, fisheries, and depth-stratified environmental data.

[ropensci-staging] HazardMaps 0.1.0

valentina.clavijo@usp.br (Maria Valentina Clavijo Mesa) — Tue, 06 Oct 2026 21:25:45 GMT

An R package for reproducible analysis of spatial dependence in environmental and climate-related variables. The package provides a unified workflow to ingest spatial datasets, estimate and visualize spatial correlation structures, fit multiple dependence models including vine copulas (C-vine and D-vine), Gaussian models, and stochastic fields, and compare them using quantitative indicators to support model selection. Based on the selected model, the package enables the generation of spatially dependent pseudoscenarios for uncertainty analysis and simulation studies. The design emphasizes numerical robustness, modularity, and reproducibility across heterogeneous spatial data sources.

[ropensci-staging] coevolve 1.2.1

scott.claessens@gmail.com (Scott Claessens) — Tue, 06 Oct 2026 19:31:38 GMT

Fit Bayesian generalized dynamic phylogenetic models using 'Stan' or 'JAX'. The package allows an arbitrary number of variables with different response distributions to coevolve on a phylogenetic tree via an Ornstein-Uhlenbeck evolutionary process, allowing users to assess directionality between coevolving variables. The optional JAX backend enables high-performance sampling with NumPyro and potential GPU acceleration via 'reticulate'.

[ropensci-staging] RAQSAPI 2.0.6

mccrowey.clinton@epa.gov (Clinton Mccrowey) — Fri, 02 Oct 2026 20:54:01 GMT

Retrieve air monitoring data and associated metadata from the US Environmental Protection Agency's Air Quality System service using functions. See for details about the US EPA Data Mart API .

[ropensci-staging] DeCovarT 2.3.1

bastien_chassagnol@laposte.net (Bastien Chassagnol) — Thu, 01 Oct 2026 15:38:11 GMT

Estimates cell-type proportions in bulk transcriptomic samples with a probabilistic convolution model that integrates the gene-gene covariance structure of purified reference profiles. Cellular ratios are recovered by maximum likelihood under a multivariate Gaussian convolution, using analytic gradients and Hessians, an isometric log-ratio reparametrisation (Helmert basis) that enforces the simplex constraint, and Marquardt-Levenberg or Newton-type optimisers. The methodology is described in Chassagnol, Nuel and Becht (2023) .

[ropensci-staging] nert 1.1.0

max.moldovan@adelaide.edu.au (Max Moldovan) — Thu, 01 Oct 2026 01:23:15 GMT

Provides curated access to gridded environmental data published by Australia's Terrestrial Ecosystem Research Network (TERN; ), spanning national soil attribute, soil classification, soil biodiversity, soil moisture, actual evapotranspiration, vegetation canopy height and phenology products. The package reads Cloud-Optimised GeoTIFF and virtual raster files directly from the TERN data server via GDAL /vsicurl range requests, streaming only the requested spatial and temporal subset for efficient data transfer. The environmental raster data are returned as terra::SpatRaster objects. A convenient helper function is also provided that provides a batch-download capability given specific locations and dates, returning the extracted data values in an analysis-ready data.table. Access to the TERN datasets using this package requires a TERN API key.

[ropensci-staging] kindling 0.3.2.9000

joshua.marie.k@gmail.com (Joshua Marie) — Sat, 26 Sep 2026 03:43:36 GMT

Provides a higher-level interface to the 'torch' package for defining, training, and fine-tuning neural networks through code generation. The package supports several architectures, including feedforward (multi-layer perceptron) and recurrent neural networks (RNN, LSTM, GRU), while reducing boilerplate 'torch' code. Model training methods also bridge to machine learning frameworks in R, particularly the 'tidymodels' ecosystem, including 'parsnip' model specifications, 'workflows', 'recipes', and tuning tools.

[ropensci-staging] rcrisp 0.3.1

c.forgaci@tudelft.nl (Claudiu Forgaci) — Tue, 22 Sep 2026 12:31:05 GMT

Provides tools to automate the morphological delineation of riverside urban areas based on a method introduced in Forgaci (2018) . Delineation entails the identification of corridor boundaries, segmentation of the corridor, and delineation of the river space using two-dimensional spatial information from street network data and digital elevation data in a projected CRS. The resulting delineation can be used to characterise spatial phenomena that can be related to the river as a central element.

[ropensci-staging] emodnet.wcs 0.0.2.9000

msmaellesalmon@gmail.com (Maëlle Salmon) — Tue, 22 Sep 2026 11:41:12 GMT

Access and interrogate EMODnet Web Coverage Service data through R.

[ropensci-staging] dyadicMarkov 0.1.3.9000

mboellenruec@student.ethz.ch (Mattia Böllenrücher) — Mon, 21 Sep 2026 06:56:38 GMT

Provides methods for analyzing categorical dyadic sequences using transition matrices within the Longitudinal Actor-Partner Interdependence Model and Markov-chain framework. The package supports empirical transition counts, maximum likelihood estimation of transition probabilities, and identification of univariate and bivariate patterns of interaction in dyadic sequences.

[ropensci-staging] ReliaGrowR 0.7

paul.govan2@gmail.com (Paul Govan) — Fri, 18 Sep 2026 23:29:00 GMT

Modeling and plotting functions for Reliability Growth Analysis (RGA) and Non-Homogeneous Poisson Process (NHPP) models for repairable systems. RGA models include the Duane (1962) , NHPP by Crow (1975) (No. AMSAATR138), Piecewise Weibull NHPP by Guo et al. (2010) , and Piecewise Weibull NHPP with Change Point Detection based on the 'segmented' package by Muggeo (2024) . Repairable systems functions include the Mean Cumulative Function (MCF) using the Nelson-Aalen estimator, parametric Power Law and Log-Linear NHPP models, and forecasting.

[ropensci-staging] OptSurvCutR 0.11.1

tungon@gmail.com (Payton Yau) — Fri, 18 Sep 2026 20:17:37 GMT

Provides a robust workflow for optimal cut-point analysis in time-to-event ('survival') data. Functions determine the optimal number of cut-points via find_cutpoint_number(), find their precise locations via find_cutpoint() using systematic or genetic algorithms (via the 'rgenoud' package), and validate stability via bootstrapping using validate_cutpoint(). Features include covariate adjustment, parallel processing, and an extensible S3 plotting engine for clinical dashboards and diagnostics.

[ropensci-staging] pkgaudit 0.4.0

tylerjssmith@gmail.com (Tyler Smith) — Thu, 17 Sep 2026 14:29:24 GMT

A static analysis tool that flags security-relevant files and code in R source packages for human review without executing anything it scans. Models package lifecycle execution semantics -- it reports not just what a package does, but when it runs, so code that executes on install or load is distinguishable from code that runs only when called. Reads every surface a package can execute, including 'configure' scripts, help-file macros, and vignettes, and states what it could not read, so a clean result can be checked rather than trusted. Detection rules are data, shipped in a versioned and hash-verified 'SQLite' database.

[ropensci-staging] seasight 0.1.0

philipp.wegmueller@seco.admin.ch (Philipp Wegmüller) — Mon, 14 Sep 2026 19:48:24 GMT

Provides tools for automated diagnostics, model selection and reporting for seasonal adjustment based on X-13ARIMA-SEATS. Wraps the 'seasonal' package to run and compare alternative specifications, extract quality indicators and residual diagnostics, and generate reproducible R Markdown reports for official statistics and other production workflows.

[ropensci-staging] pladdrr 5.0.5

fredrik.nylen@umu.se (Fredrik Nylén) — Mon, 14 Sep 2026 08:38:59 GMT

Provides direct access to Praat C implemented functionality from R. This package allows R users to leverage Praat's powerful phonetic analysis capabilities directly from R. The package exposes 39 Praat modules with 500+ methods for sound manipulation, robust formant tracking (FormantPath, FormantModeler), speech synthesis (KlattGrid), pitch analysis, intensity measurements, spectral analysis (ComplexSpectrogram), cepstral coefficients (MFCC, LFCC), statistical analysis (PCA, Discriminant), auditory modeling (Cochleagram, Excitation), TextGrid annotation, voice quality assessment, geometric operations (Polygon), and a persistent Praat script interpreter with bidirectional R-Praat object transfer.

[ropensci-staging] qualtdict 0.1.0

yuhao.lin@kcl.ac.uk (Yuhao Lin) — Sat, 05 Sep 2026 20:00:48 GMT

Generates Variable Dictionaries from 'Qualtrics' survey metadata and applies those dictionaries to create Labelled Survey Data. This package is a metadata and labelled-export companion to 'qualtRics', which provides access to 'Qualtrics' survey data and metadata via the 'Qualtrics' API .

[ropensci-staging] tarpolyglot 0.3.0

pierre.solomon@laposte.net (Pierre Solomon) — Thu, 03 Sep 2026 05:01:34 GMT

Adds target constructors that make it easy to use 'Python', 'Julia', 'Rust', and 'C++' inside a 'targets' pipeline using 'reticulate', 'JuliaCall', 'rextendr', and 'Rcpp'. Provides tar_target_py(), tar_target_jl(), tar_target_rs(), and tar_target_cpp() (with matching _raw() variants), each mirroring 'targets' tar_target() and tar_target_raw() functions. 'Python' and 'Julia' steps run a script via a live interpreter with optional R pre- and post-scripts; 'Rust' and 'C++' steps compile functions and call them from an R post-script. Results are then returned either as converted R objects or as files written to disk (format = "file"). Dynamic branching, environment/version selection, a 'crew' controller for isolation, and the full set of tar_target_raw() arguments are supported.

[ropensci-staging] expoquimR 0.1.0

raguilar@universidadviu.com (Raúl Aguilar-Elena) — Wed, 26 Aug 2026 17:06:17 GMT

Provides a unified toolkit for occupational chemical exposure risk assessment, implementing three internationally recognised methods end to end: the qualitative control-banding methods COSHH Essentials (UK Health and Safety Executive) and the method of the French National Research and Safety Institute (INRS), together with the quantitative statistical procedure of the UNE-EN 689 standard for comparing measured exposure levels against occupational exposure limits. Every step of each method, from hazard banding and exposure scoring to lognormal or normal distribution fitting, one-sided tolerance limits, and monitoring-interval recommendations, is implemented as a small, independently callable, and unit-tested function, so assessments are reproducible and auditable without depending on any graphical interface. Optional 'shiny' applications provide a guided, interactive workflow for occupational hygienists and health and safety practitioners who prefer not to write code. References: UK Health and Safety Executive (2003) ; Mallet, Pilorget and Berne (2013, ISBN:978-2-7389-2166-2) "Méthodologie d'évaluation simplifiée du risque chimique: un outil d'aide à la décision" INRS ND 2233; European Committee for Standardisation (2018) .

[ropensci-staging] bridgr 1.0.0

marc.burri91@gmail.com (Marc Burri) — Sat, 22 Aug 2026 17:12:42 GMT

Implements bridge and MIDAS-style mixed-frequency models for nowcasting and forecasting macroeconomic variables by linking higher-frequency indicator variables to a lower-frequency target series. The package standardizes input data, infers regular frequencies, forecasts missing indicator observations, and aggregates indicators to the target frequency before fitting a regression with autoregressive target dynamics. Frequency alignment can be customized through user-supplied conversion rules. For more on bridge and MIDAS models, see Baffigi, A., Golinelli, R., & Parigi, G. (2004) , Ghysels, Sinko, & Valkanov (2007) , Andreou, Ghysels, & Kourtellos (2010) , Schumacher (2016) , and Burri (2026) .

[ropensci-staging] tezr 0.1.0.9000

eer@eremrah.com (Emrah Er) — Fri, 31 Jul 2026 17:50:23 GMT

Retrieve, parse, cache, and analyze thesis metadata from the Council of Higher Education's National Thesis Center (Ulusal Tez Merkezi) at . Supports basic, advanced, and detailed search. Also supports thesis detail retrieval, lookup tables, adaptive pagination for capped search results, and aggregate statistics for retrieval checks.

[ropensci-staging] taxastand 2.0.0.9000

joelnitta@gmail.com (Joel Nitta) — Sat, 25 Jul 2026 04:26:18 GMT

Standardizes taxonomic names by matching species names to entries in a user-supplied reference taxonomy, then resolving synonyms to their accepted names. Fuzzy matching on parsed name components (genus, epithet, author, infraspecific rank, etc.) allows for orthographic differences between the query and reference names. This facilitates reproducible joining of datasets that use different taxonomic synonyms for the same species.

[ropensci-staging] nonabsdid 0.4.1.9000

iwasakit@stanford.edu (Takuma Iwasaki) — Tue, 07 Jul 2026 21:23:51 GMT

Runs several heterogeneity-robust difference-in-differences (DID) event-study estimators for non-absorbing (i.e., treatment can switch on and off over time, allowing treatment reversal) binary treatments through their respective packages, harmonizes their output onto a common time axis and tidy data structure, and overlays them in a single 'ggplot2' panel for visual comparison. Supported estimators include those provided by 'DIDmultiplegtDYN', 'PanelMatch', and 'fect', with an optional naive two-way fixed-effects reference series via 'fixest'. The underlying methods are respectively described in Clement de Chaisemartin and Xavier D'Haultfoeuille. "Difference-in-Differences Estimators of Intertemporal Treatment Effects." The Review of Economics and Statistics (2026) , Kosuke Imai, In Song Kim, and Erik H. Wang. "Matching methods for causal inference with time‐series cross‐sectional data." American Journal of Political Science 67.3 (2023) , Licheng Liu, Ye Wang, and Yiqing Xu. "A practical guide to counterfactual estimators for causal inference with time‐series cross‐sectional data." American Journal of Political Science 68.1 (2024) , and Laurent R. Bergé, Kyle Butts, and Grant McDermott. "Fast and user-friendly econometrics estimations: The R package 'fixest'." arXiv preprint (2026) . A single nabs_event_study() wrapper runs any supported estimator with a common interface; nabs_event_study_simple() provides a one-line front door for quick exploratory runs; the S3 generic as_nabs_event_study() coerces estimator output into a tidy stable schema; and nabs_event_plot() overlays multiple methods on a single 'ggplot2' panel, with optional naive two-way fixed effects drawn in a neutral color as a reference.

[ropensci-staging] fcmconfr 0.2.3

bhroston@vt.edu (Ben Roston) — Sun, 21 Jun 2026 02:00:01 GMT

fcmconfr streamlines the process of conducting dynamic simulations using Fuzzy Cognitive Maps (FCMs). The package supports multiple FCM types (conventional, Interval-Value Fuzzy Number (IVFN) and Triangular Fuzzy Number (TFN)) and provides tools for model aggregation and the propagation of uncertainty from individual FCMs through to the aggregate.

[ropensci-staging] logolink 1.0.1.9000

danielvartan@proton.me (Daniel Vartanian) — Tue, 12 May 2026 23:35:41 GMT

An interface for 'NetLogo' that enables programmatic setup and execution of simulations. Designed to facilitate integrating 'NetLogo' models into reproducible workflows by creating and running 'BehaviorSpace' experiments and retrieving their results.

[ropensci-staging] HydraR 0.2.4

ignatius.pang@mq.edu.au (Chi Nam Ignatius Pang) — Thu, 23 Apr 2026 14:30:55 GMT

A high-performance framework for orchestrating complex agentic workflows in R, specifically designed for scientific reproducibility and auditability. HydraR provides a robust, state-managed engine for Directed Acyclic Graphs (DAGs) and iterative state machines, prioritizing CLI-native LLM interactions (e.g., Gemini, Claude, Copilot) and hardened state persistence (DuckDB/SQLite). It features isolated execution via Git Worktrees for parallel file-modifying tasks, autonomous quality control through integrated auditors, and human-readable visualization using Mermaid.js. Ideal for creating auditable, resumable research assistants and complex bioinformatics pipelines.

[ropensci-staging] cowfootR 0.1.3

juanmarcosmoreno@gmail.com (Juan Moreno) — Sat, 21 Mar 2026 17:51:12 GMT

Calculates the carbon footprint of dairy farms based on methodologies of the International Dairy Federation and the Intergovernmental Panel on Climate Change. Includes tools for single-farm and batch analysis, report generation, and visualization. Methods follow International Dairy Federation (2022) "The IDF global Carbon Footprint standard for the dairy sector" (Bulletin of the IDF n° 520/2022) and IPCC (2019) "2019 Refinement to the 2006 IPCC Guidelines for National Greenhouse Gas Inventories, Chapter 10: Emissions from Livestock and Manure Management" guidelines.

[ropensci-staging] ActiGlobe 0.2.2

chun.william.yao.cnmtl@ssss.gouv.qc.ca (C. William Yao) — Wed, 04 Feb 2026 22:57:10 GMT

Cross-continental travel and local practices of daylight saving time can induce time shift. When left unadjusted, it can lead to biases in interpreting wearable measures. This research tool streamlines data processing and analysis (e.g., cosinor analysis, circularized kernel density estimation) for longitudinal recordings. Together with additional features such as exporting daily wearable measures and creating visual reports, it aims to facilitate research on longitudinal wearable measurements. To learn its application, please refer to the provided vignettes for a brief tutorial. This tool is developed based on the methodology detailed in: Varesco, G. Yao, C. W., Dubé, E., Simonelli, G., Bieuzen, F., (2024) .

[ropensci-staging] rosettaR 0.1.0

tim.alamenciak@gmail.com (Tim Alamenciak) — Wed, 21 Jan 2026 16:33:04 GMT

Core functions to work with Rosetta Statements, which use templates to convert plain language strings into RDF, CSV or other representations. This package is designed to make the creation of knowledge graphs easier.

[ropensci-staging] bddkR 0.1.0

ozancanozdemir@gmail.com (Ozancan Ozdemir) — Mon, 11 Aug 2025 13:17:16 GMT

The package fetches monthly financial tables and banking sector data published on the official website of the Banking Regulation and Supervision Agency (BRSA, BDDK) of Turkey and also enables you to save it as an Excel file. It is a R implementation of the Python package of [bddkdata](https://pypi.org/project/bddkdata/).