EML - Read and Write Ecological Metadata Language Files

Work with Ecological Metadata Language ('EML') files. 'EML' is a widely used metadata standard in the ecological and environmental sciences, described in Jones et al. (2006), <doi:10.1146/annurev.ecolsys.37.091305.110031>.

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emleml-metadatametadata-standard

11.38 score 99 stars 10 dependents 416 scripts 1.0k downloads

codyn - Community Dynamics Metrics

Univariate and multivariate temporal and spatial diversity indices, rank abundance curves, and community stability measures. The functions implement measures that are either explicitly temporal and include the option to calculate them over multiple replicates, or spatial and include the option to calculate them over multiple time points. Functions fall into five categories: static diversity indices, temporal diversity indices, spatial diversity indices, rank abundance curves, and community stability measures. The diversity indices are temporal and spatial analogs to traditional diversity indices. Specifically, the package includes functions to calculate community richness, evenness and diversity at a given point in space and time. In addition, it contains functions to calculate species turnover, mean rank shifts, and lags in community similarity between two time points. Details of the methods are available in Hallett et al. (2016) <doi:10.1111/2041-210X.12569> and Avolio et al. (2019) <doi:10.1002/ecs2.2881>.

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9.24 score 37 stars 312 scripts 481 downloads

emld - Ecological Metadata as Linked Data

This is a utility for transforming Ecological Metadata Language ('EML') files into 'JSON-LD' and back into 'EML.' Doing so creates a list-based representation of 'EML' in R, so that 'EML' data can easily be manipulated using standard 'R' tools. This makes this package an effective backend for other 'R'-based tools working with 'EML.' By abstracting away the complexity of 'XML' Schema, developers can build around native 'R' list objects and not have to worry about satisfying many of the additional constraints of set by the schema (such as element ordering, which is handled automatically). Additionally, the 'JSON-LD' representation enables the use of developer-friendly 'JSON' parsing and serialization that may facilitate the use of 'EML' in contexts outside of 'R,' as well as the informatics-friendly serializations such as 'RDF' and 'SPARQL' queries.

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8.15 score 14 stars 11 dependents 77 scripts 945 downloads

rt - Interface to the 'Request Tracker' API

Provides a programmatic interface to the 'Request Tracker' (RT) HTTP API <https://rt-wiki.bestpractical.com/wiki/REST>. 'RT' is a popular ticket tracking system.

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apirequest-tracker

8.01 score 6 stars 703 scripts 374 downloads

metajam - Easily Download Data and Metadata from 'DataONE'

A set of tools to foster the development of reproducible analytical workflow by simplifying the download of data and metadata from 'DataONE' (<https://www.dataone.org>) and easily importing this information into R.

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datadata-analysismetadatarepositories

6.41 score 16 stars 81 scripts 21 downloads

arcticdatautils - Utilities for the Arctic Data Center

A set of utilities for working with the Arctic Data Center (https://arcticdata.io).

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6.21 score 11 stars 1 dependents 31 scripts

vegbankr - Interface to the 'VegBank' Vegetation Plot Database

Provides a programmatic interface to 'VegBank', the vegetation plot database of the Ecological Society of America's Panel on Vegetation Classification, hosted by the National Center for Ecological Analysis and Synthesis (<https://www.nceas.ucsb.edu>). 'VegBank' contains vegetation plot data, community types recognized by the U.S. National Vegetation Classification and others, and all 'ITIS/USDA' plant taxa along with other taxa recorded in plot records. As a 'VegBank' API client, the 'vegbankr' package currently supports querying and downloading vegetation plot records and other supporting information from the 'VegBank' database, and validating and uploading new data to the 'VegBank' database as well.

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vegbank

5.77 score 3 stars 1 dependents 11 scripts

datamgmt - Data Management Utilities for Curating, Documenting, and Publishing Data

Data management utilities for curating, documenting, and publishing data.

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5.35 score 14 stars 6 scripts

vegbankweb - "'VegBank' Web: A Shiny Application for Vegetation Plot Data"

"This package provides a Shiny web interface to browse, search, inspect and download vegetation plot data."

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vegbank

3.15 score 2 stars 2 scripts

flowers - Flower Plots

Flowers provides functions to generate flower plot graphics.

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2.15 score 2 stars 14 scripts