galah - Biodiversity Data from the GBIF Node Network

The Global Biodiversity Information Facility ('GBIF', <https://www.gbif.org>) sources data from an international network of data providers, known as 'nodes'. Several of these nodes - the "living atlases" (<https://living-atlases.gbif.org>) - maintain their own web services using software originally developed by the Atlas of Living Australia ('ALA', <https://www.ala.org.au>). 'galah' enables the R community to directly access data and resources hosted by 'GBIF' and its partner nodes.

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biodiversitybiologyecology

8.82 score 49 stars 1 dependents 349 scripts 465 downloads

synthesisr - Import, Assemble, and Deduplicate Bibliographic Datasets

A critical first step in systematic literature reviews and mining of academic texts is to identify relevant texts from a range of sources, particularly databases such as 'Web of Science' or 'Scopus'. These databases often export in different formats or with different metadata tags. 'synthesisr' expands on the tools outlined by Westgate (2019) <doi:10.1002/jrsm.1374> to import bibliographic data from a range of formats (such as 'bibtex', 'ris', or 'ciw') in a standard way, and allows merging and deduplication of the resulting dataset.

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8.24 score 35 stars 2 dependents 105 scripts 1.0k downloads

galaxias - Describe, Package, and Share Biodiversity Data

The Darwin Core data standard is widely used to share biodiversity information, most notably by the Global Biodiversity Information Facility and its partner nodes; but converting data to this standard can be tricky. 'galaxias' is functionally similar to 'devtools', but with a focus on building Darwin Core Archives rather than R packages, enabling data to be shared and re-used with relative ease. For details see Wieczorek and colleagues (2012) <doi:10.1371/journal.pone.0029715>.

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quarto

6.40 score 8 stars 8 scripts 188 downloads

revtools - Tools to Support Evidence Synthesis

Researchers commonly need to summarize scientific information, a process known as 'evidence synthesis'. The first stage of a synthesis process (such as a systematic review or meta-analysis) is to download a list of references from academic search engines such as 'Web of Knowledge' or 'Scopus'. The traditional approach to systematic review is then to sort these data manually, first by locating and removing duplicated entries, and then screening to remove irrelevant content by viewing titles and abstracts (in that order). 'revtools' provides interfaces for each of these tasks. An alternative approach, however, is to draw on tools from machine learning to visualise patterns in the corpus. In this case, you can use 'revtools' to render ordinations of text drawn from article titles, keywords and abstracts, and interactively select or exclude individual references, words or topics.

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5.82 score 57 stars 116 scripts 881 downloads

potions - Easy Options Management

Store and retrieve data from options() using syntax derived from the 'here' package. 'potions' makes it straightforward to update and retrieve options, either in the workspace or during package development, without overwriting global options.

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4.78 score 2 stars 2 dependents 6 scripts 357 downloads

delma - Convert 'R Markdown' and 'Quarto' Documents to Ecological Metadata Language

Ecological Metadata Language or 'EML' is a long-established format for describing ecological datasets to facilitate sharing and re-use. Because 'EML' is effectively a modified 'xml' schema, however, it is challenging to write and manipulate for non-expert users. 'delma' supports users to write metadata statements in 'R Markdown' or 'Quarto markdown' format, and parse them to 'EML' and (optionally) back again.

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quarto

4.48 score 1 stars 1 dependents 6 scripts 205 downloads