R packages by inbo

kableExtra - Construct Complex Table with 'kable' and Pipe Syntax

Build complex HTML or 'LaTeX' tables using 'kable()' from 'knitr' and the piping syntax from 'magrittr'. Function 'kable()' is a light weight table generator coming from 'knitr'. This package simplifies the way to manipulate the HTML or 'LaTeX' codes generated by 'kable()' and allows users to construct complex tables and customize styles using a readable syntax.

Last updated 1 years ago

7.59 score 58 dependencies 154 dependents

qgisprocess - Use 'QGIS' Processing Algorithms

Provides seamless access to the 'QGIS' (<https://qgis.org/en/site/>) processing toolbox using the standalone 'qgis_process' command-line utility. Both native and third-party (plugin) processing providers are supported. Beside referring data sources from file, also common objects from 'sf', 'terra' and 'stars' are supported. The native processing algorithms are documented by QGIS.org (2024) <https://docs.qgis.org/latest/en/docs/user_manual/processing_algs/>.

Last updated 1 days ago

197 stars 5.63 score 20 dependencies

git2rdata - Store and Retrieve Data.frames in a Git Repository

The git2rdata package is an R package for writing and reading dataframes as plain text files. A metadata file stores important information. 1) Storing metadata allows to maintain the classes of variables. By default, git2rdata optimizes the data for file storage. The optimization is most effective on data containing factors. The optimization makes the data less human readable. The user can turn this off when they prefer a human readable format over smaller files. Details on the implementation are available in vignette("plain_text", package = "git2rdata"). 2) Storing metadata also allows smaller row based diffs between two consecutive commits. This is a useful feature when storing data as plain text files under version control. Details on this part of the implementation are available in vignette("version_control", package = "git2rdata"). Although we envisioned git2rdata with a git workflow in mind, you can use it in combination with other version control systems like subversion or mercurial. 3) git2rdata is a useful tool in a reproducible and traceable workflow. vignette("workflow", package = "git2rdata") gives a toy example. 4) vignette("efficiency", package = "git2rdata") provides some insight into the efficiency of file storage, git repository size and speed for writing and reading.

Last updated 2 days ago

reproducible-researchversion-control

98 stars 4.35 score 3 dependencies 3 dependents

codemetar - Generate 'CodeMeta' Metadata for R Packages

The 'Codemeta' Project defines a 'JSON-LD' format for describing software metadata, as detailed at <https://codemeta.github.io>. This package provides utilities to generate, parse, and modify 'codemeta.json' files automatically for R packages, as well as tools and examples for working with 'codemeta.json' 'JSON-LD' more generally.

Last updated 2 months ago

metadatacodemetaropenscicitationcreditlinked-datajson-ldpeer-reviewed

66 stars 4.21 score 41 dependencies 5 dependents

zen4R - Interface to 'Zenodo' REST API

Provides an Interface to 'Zenodo' (<https://zenodo.org>) REST API, including management of depositions, attribution of DOIs by 'Zenodo' and upload and download of files.

Last updated 3 months ago

apidatacitedepositionsdepositsdoifairzenodo

44 stars 3.46 score 67 dependencies 2 dependents

frictionless - Read and Write Frictionless Data Packages

Read and write Frictionless Data Packages. A 'Data Package' (<https://specs.frictionlessdata.io/data-package/>) is a simple container format and standard to describe and package a collection of (tabular) data. It is typically used to publish FAIR (<https://www.go-fair.org/fair-principles/>) and open datasets.

Last updated 9 days ago

frictionlessdataoscibio

27 stars 3.36 score 36 dependencies 4 dependents

checklist - A Thorough and Strict Set of Checks for R Packages and Source Code

An opinionated set of rules for R packages and R source code projects.

Last updated 2 months ago

checklistcontinuous-integrationcontinuous-testingquality-assurance

16 stars 2.22 score 113 dependencies 2 dependents

camtrapdp - Read and Manipulate Camera Trap Data Packages

Read and manipulate Camera Trap Data Packages ('Camtrap DP'). 'Camtrap DP' (<https://camtrap-dp.tdwg.org>) is a data exchange format for camera trap data. With 'camtrapdp' you can read, filter and transform data (including to Darwin Core) before further analysis in e.g. 'camtraptor' or 'camtrapR'.

Last updated 2 days ago

camtrap-dposcibio

5 stars 2.19 score 64 dependencies

camtraptor - Read, Explore and Visualize Camera Trap Data Packages

Read, explore and visualize Camera Trap Data Packages (Camtrap DP). 'Camtrap DP' (<https://camtrap-dp.tdwg.org>) is a community developed data exchange format for this type of data. With camtraptor you can read and filter data, create overviews of observed species, relative abundance or effort, and plot these data on a map.

Last updated 5 months ago

camera-trapsoscibio

10 stars 2.00 score 86 dependencies

inborutils - Collection of Useful R Utilities

While working on research projects, typical small functionalities are useful across these projects. Instead of copy-pasting these functions in all individual project repositories/folders, this package collects these functions for reuse by ourself and - if useful - others as well.

Last updated 10 months ago

10 stars 1.95 score 110 dependencies

trias - Process Data for the Project Tracking Invasive Alien Species (TrIAS)

This package provides functionality to facilitate the data processing for the project Tracking Invasive Alien Species (TrIAS <http://trias-project.be>).

Last updated 2 months ago

invasive-speciesoscibio

3 stars 1.75 score 121 dependencies

INBOmd - Markdown Templates for INBO

Several templates to generate reports, presentations and posters.

Last updated 8 months ago

bookdownrmarkdownxelatex

11 stars 1.64 score 121 dependencies

wateRinfo - Download Time Series Data from Waterinfo.be

wateRinfo facilitates access to waterinfo.be (<https://www.waterinfo.be>), a website managed by the Flanders Environment Agency (VMM) and Flanders Hydraulics Research. The website provides access to real-time water and weather related environmental variables for Flanders (Belgium), such as rainfall, air pressure, discharge, and water level. The package provides functions to search for stations and variables, and download time series.

Last updated 2 years ago

apiclimatelifewatchopen-scienceoscibioropensciwaterweather

13 stars 1.58 score 26 dependencies

inbodb - Connect to and Retrieve Data from Databases on the INBO Server

A bundle of functions to connect to and retrieve data from databases on the INBO server, with dedicated functions to query some of these databases.

Last updated 17 days ago

database

1.24 score 24 dependencies 1 dependents

n2khab - Providing Preprocessed Reference Data for Flemish Natura 2000 Habitat Analyses

The n2khab package is an R package with preprocessing functions and standard reference data, useful for analyses regarding Flemish Natura 2000 habitats and regionally important biotopes (RIBs).

Last updated 9 months ago

habitatnatura2000preprocessing-functionsreproducibility

2 stars 1.24 score 42 dependencies 1 dependents

effectclass - Classification and Visualisation of Effects

Classify effects by comparing the confidence intervals with thresholds.

Last updated 3 months ago

effect-sizefan-chart

6 stars 1.16 score 71 dependencies

protocolhelper - Helper Functions to Manage Protocols

Helper functions to manage INBO protocols.

Last updated 3 days ago

5 stars 1.08 score 121 dependencies

inbospatial - A Collection of Useful R Functions for Spatial Data

Useful R functions developed at the Research Institute for Nature and Forest (INBO) for dealing with spatial raster or vector data.

Last updated 1 years ago

4 stars 0.82 score 49 dependencies

n2khabmon - Prepare and Manage N2KHAB Monitoring Schemes

n2khabmon is an R package with utilities to prepare and manage Flemish monitoring schemes regarding Natura 2000 habitats and regionally important biotopes (RIBs).

Last updated 3 months ago

0.71 score 43 dependencies

multimput - Using Multiple Imputation to Address Missing Data

Accompanying package for the paper: Working with population totals in the presence of missing data comparing imputation methods in terms of bias and precision. Published in 2017 in the Journal of Ornithology volume 158 page 603–615 (<doi:10.1007/s10336-016-1404-9>).

Last updated 12 months ago

imputationimputation-model

1 stars 0.71 score 34 dependencies 1 dependents

LSVI - Rekenmodule Lokale Staat Van Instandhouding van habitattypen

Het package LSVI bundelt een aantal functies in verband met het ophalen van informatie over en het berekenen van de Lokale Staat Van Instandhouding (LSVI) van habitattypes.

Last updated 1 years ago

1 stars 0.71 score 107 dependencies

n2kanalysis - Generic Functions to Analyse Data from the 'Natura 2000' Monitoring

All generic functions and classes for the analysis for the 'Natura 2000' monitoring. The classes contain all required data and definitions to fit the model without the need to access other sources. Potentially they might need access to one or more parent objects. An aggregation object might for example need the result of an imputation object. The actual definition of the analysis, using these generic function and classes, is defined in dedictated analysis R packages for every monitoring scheme. For example 'abvanalysis' and 'watervogelanalysis'.

Last updated 7 months ago

analysismonitoringnatura2000

1 stars 0.61 score 62 dependencies

watina - Querying and Processing Data from the INBO Watina Database

The R-package watina contains functions to query and process data from the Watina database at the Research Institute for Nature and Forest (INBO). This database primarily provides groundwater level and chemical data, mainly from natural areas in Flanders (Belgium).

Last updated 10 months ago

groundwaterpreprocessing-functionsreproducibility

1 stars 0.61 score 32 dependencies

inlatools - Diagnostic Tools for INLA Models

Several functions which can be useful to choose sensible priors and diagnose the fitted model.

Last updated 2 years ago

bayesian-statisticsgplv3inlamixed-modelsmodel-checkingmodel-validation

4 stars 0.61 score 52 dependencies

INBOtheme - Themes for ggplot2

Several themes for the ggplot2 package. Among others themes complying with the style guide for the Research Institute for Nature and Forest (INBO) and Elsevier journals.

Last updated 1 years ago

ggplot2ggplot2-themes

3 stars 0.49 score 33 dependencies