naniar - Data Structures, Summaries, and Visualisations for Missing Data

Missing values are ubiquitous in data and need to be explored and handled in the initial stages of analysis. 'naniar' provides data structures and functions that facilitate the plotting of missing values and examination of imputations. This allows missing data dependencies to be explored with minimal deviation from the common work patterns of 'ggplot2' and tidy data. The work is fully discussed at Tierney & Cook (2023) <doi:10.18637/jss.v105.i07>.

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data-visualisationggplot2missing-datamissingnesstidy-data

15.30 score 672 stars 11 dependents 7.3k scripts 25k downloads

visdat - Preliminary Visualisation of Data

Create preliminary exploratory data visualisations of an entire dataset to identify problems or unexpected features using 'ggplot2'.

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exploratory-data-analysismissingnesspeer-reviewedropenscivisualisation

13.21 score 462 stars 12 dependents 2.7k scripts 24k downloads

visdat - Preliminary Visualisation of Data

Create preliminary exploratory data visualisations of an entire dataset to identify problems or unexpected features using 'ggplot2'.

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exploratory-data-analysismissingnesspeer-reviewedropenscivisualisation

13.21 score 462 stars 12 dependents 2.7k scripts 24k downloads

greta - Simple and 'Scalable' Statistical Modelling in R

Write statistical models in R and fit them by MCMC and optimisation on 'CPUs' and 'GPUs', using Google 'TensorFlow'. 'greta' lets you write your own model like in BUGS, JAGS and Stan, except that you write models right in R, it scales well to massive datasets, and it’s easy to extend and build on. See the website for more information, including tutorials, examples, package documentation, and the 'greta' forum.

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10.85 score 601 stars 4 dependents 516 scripts 79 downloads

brolgar - Browse Over Longitudinal Data Graphically and Analytically in R

Provides a framework of tools to summarise, visualise, and explore longitudinal data. It builds upon the tidy time series data frames used in the 'tsibble' package, and is designed to integrate within the 'tidyverse', and 'tidyverts' (for time series) ecosystems. The methods implemented include calculating features for understanding longitudinal data, including calculating summary statistics such as quantiles, medians, and numeric ranges, sampling individual series, identifying individual series representative of a group, and extending the facet system in 'ggplot2' to facilitate exploration of samples of data. These methods are fully described in the paper "brolgar: An R package to Browse Over Longitudinal Data Graphically and Analytically in R", Nicholas Tierney, Dianne Cook, Tania Prvan (2020) <doi:10.32614/RJ-2022-023>.

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8.85 score 115 stars 146 scripts 284 downloads

geotargets - 'targets' Extensions for Geographic Spatial Formats

Provides extensions for various geographic spatial file formats, such as shape files and rasters. Currently provides support for the 'terra' geographic spatial formats. See the vignettes for worked examples, demonstrations, and explanations of how to use the various package extensions.

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geospatialpipeliner-targetopiarasterreproducibilityreproducible-researchtargetsvectorworkflow

7.94 score 93 stars 116 scripts 610 downloads

conmat - Builds Contact Matrices using Generalised Additive Models (GAMs) and Population Data

Builds contact matrices using Generalised Additive Models (GAMs) and population data, as described in Tierney, Saraswati, Babu, Lydeamore, and Golding (2026) <doi:10.21105/joss.08326>. This package incorporates data that is copyright Commonwealth of Australia (Australian Electoral Commission and Australian Bureau of Statistics) 2020.

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contact-matricesinfectious-diseasespopulation-datapublic-health

7.54 score 21 stars 76 scripts

geotargets - 'targets' Extensions for Geographic Spatial Formats

Provides extensions for various geographic spatial file formats, such as shape files and rasters. Currently provides support for the 'terra' geographic spatial formats. See the vignettes for worked examples, demonstrations, and explanations of how to use the various package extensions.

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geospatialpipeliner-targetopiarasterreproducibilityreproducible-researchtargetsvectorworkflow

7.24 score 93 stars 117 scripts 591 downloads

syn - Creates Synonyms From Target Words

Generates synonyms from a given word drawing from a synonym list from the 'moby' project <http://moby-thesaurus.org/>.

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antonymsozunconf18synonymstext-processingthesaurusunconf

6.41 score 54 stars 2 dependents 32 scripts 262 downloads

maxcovr - A Set of Tools For Solving The Maximal Covering Location Problem

Solving the "maximal covering location problem" as described by Church can be difficult for users not familiar with linear programming. maxcovr provides functions to make it easy to solve this problem, and tools to calculate facility coverage.

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distancelinear-programmingcpp

5.89 score 46 stars 56 scripts

greta.gp - Gaussian Process Modelling in 'greta'

Provides a syntax to create and combine Gaussian process kernels in 'greta'. You can then them to define either full rank or sparse Gaussian processes. This is an extension to the 'greta' software, Golding (2019) <doi:10.21105/joss.01601>.

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5.23 score 19 stars 45 scripts 57 downloads

mmcc - tidy mcmc.list using data.table

Tidy up, diagnose, and visualise your mcmc samples quickly and easily so you can get on with your analysis.

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4.64 score 22 stars 10 scripts

urbioconnect - Urban Habitat Connectivity Analysis

Analyse and visualise habitat connectivity in urban landscapes, accounting for barriers and buffer distances. Includes Shiny app for interactive analysis and report generation. Based on methods developed by Kirk et al (2023) <doi:10.1016/j.mex.2022.101989>.

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ecologyshinyspatial-analysisurban-ecologyquarto

4.43 score 12 scripts

greta.dynamics - Modelling Structured Dynamical Systems in 'greta'

A 'greta' extension for analysing transition matrices and ordinary differential equations representing dynamical systems. Provides functions for analysing transition matrices by iteration, and solving ordinary differential equations. This is an extension to the 'greta' software, Golding (2019) <doi:10.21105/joss.01601>.

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4.33 score 6 stars 18 scripts 58 downloads

ozroaddeaths - Pulls Data From Australian Road Deaths Database

ozroaddeaths is a package that pulls data from the Australian Road Deaths Database, run by the Bureau of Infrastructure, Transport and Regional Economics (BITRE). This provides basic details of road transport crash fatalities in Australia as reported by the police each month to the State and Territory road safety authorities. The details provided in the database fall into two groups: 1) the circumstances of the crash, for example, date, location, crash type some details regarding the persons killed, for example, age, gender and road user group.

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ozunconf17unconf

4.24 score 5 stars 8 scripts

broomstick - Convert Decision Tree Objects into Tidy Data Frames

Convert Decision Tree objects into tidy data frames, by using the framework laid out by the package broom, this means that decision tree output can be easily reshaped, porocessed, and combined with tools like 'dplyr', 'tidyr' and 'ggplot2'. Like the package broom, broomstick provides three S3 generics: tidy, to summarise decision tree specific features - tidy returns the variable importance table; augment adds columns to the original data such as predictions and residuals; and glance, which provides a one-row summary of model-level statistics.

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broomdecision-treesgbmmachine-learningrandomforestrpartstatistical-learning

3.61 score 29 stars 28 scripts

greta.gam - Generalised Additive Models in 'greta' using 'mgcv'

A 'greta' (Golding (2019) <doi:10.21105/joss.01601>) module that lets you use 'mgcv' smoother functions and formula syntax to define smooth terms for use in a 'greta' model. You can then define your own likelihood to complete the model, and fit it by Markov Chain Monte Carlo (MCMC).

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3.34 score 11 stars 6 scripts 4 downloads

yahtsee - Yet Another Hierachical Time Series Extension and Expansion

An opinionated approach to building hierarchical time series models in R using INLA and inlabru.

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3.00 score 2 stars 8 scripts

chaletex - Extract LaTeX packages from TeX files and Install Them

Trying to compile LaTeX files can be frustrating when you need to stop at every attempted compile and install the missing packages. The goal of chaletex is to make it easy to extract packages you need to install from LaTeX. It is named `chaletex` as we want this to be like walking into a Chalet after a big day - a nice, friendly, cozy place for your TeX problems.

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2.54 score 7 stars 2 scripts