Software 📦

CRAN: GitHub:

New packages

  • The first version (v0.1.0) of rcitoid is on CRAN - Client for Citoid, Wikipedia’s citation data. Checkout the README to get started. rcitoid rcitoid

New Versions

  • A new version (v1.0.7) of nasapower is on CRAN - NASA POWER API Client. See the release notes for changes. Checkout the docs to get started. nasapower nasapower

    minor changes

  • A new version (v0.2-7) of dbhydroR is on CRAN - DBHYDRO hydrologic and water quality data. See the release notes for changes. Checkout the docs to get started. dbhydroR dbhydroR

    fixed critical bug in get_hydro causing data parsing failure in all cases

  • A new version (v3.0.7) of rotl is on CRAN - an interface to the Open Tree of Life API. See the release notes for changes. Checkout the vignettes to get started. rotl rotl

    update vignette to address change to OTL TNRS endpoint

  • A new version (v0.2.0) of stats19 is on CRAN - Work with Open Road Traffic Casualty Data from Great Britain. See the release notes for changes. Checkout the docs to get started. stats19 stats19
  • A new version (v0.5.3) of visdat is on CRAN - create preliminary exploratory data visualisations of an entire dataset to identify problems or unexpected features using ggplot2. See the release notes for changes. Checkout the docs to get started. visdat visdat

    updates to vis_cor(); use glue instead of paste

  • A new version (v0.2.6) of vcr is on CRAN - record HTTP calls to disk for test caching. See the release notes for changes. Checkout the HTTP testing book to get started. vcr vcr

    new vcr setup fxn use_vcr(); support all recording modes!; many fixes to support httr integration; use_cassette() error blocks no longer include secrets

  • A new version (v0.3.4) of webmockr is on CRAN - stubbing and setting expectations on HTTP requests. See the release notes for changes. Checkout the HTTP testing book to get started. webmockr webmockr

    to_return_()/wi_th_() defunct; to_return() gains .list param; bug fixes 🐞

  • A new version (v0.3.0) of geojsonlint is on CRAN - Tools for Validating GeoJSON. See the release notes for changes. Checkout the vignette to get started. geojsonlint geojsonlint

    update JS library geojsonhint to v2.1; use crul for HTTP

  • A new version (v0.0.10) of piggyback is on CRAN - Managing larger data on a GitHub repository. See the release notes for changes. Checkout the docs to get started. piggyback piggyback

    improve interface for overwrite files on upload; bug fixes

  • A new version (v2.1) of jsonld is on CRAN - JSON for linking data. See the release notes for changes. Checkout the README to get started. jsonld jsonld

    refactor async code to work with V8 package changes



Software Review ✔

We accept community contributed packages via our onboarding system - an open software review system, sorta like scholarly paper review, but way better. We’ll highlight newly onboarded packages here. A huge thanks to our reviewers, who do a lot of work reviewing (see the blog post on our review system), and the authors of the packages!

If you want to be a reviewer fill out this short form, and we’ll ping you when there’s a submission that fits in your area of expertise.

The following package recently went through our onboarding process and has been approved:

The following two packagess were recently submitted:



On the blog

Community

Dan Sholler wrote a summary of his recent rOpenSci Community Call: Community Call Follow-up - Governance of Open Source Research Software Organizations.

Tech notes

Jeroen Ooms wrote about A Major Upgrade of the V8 package in his recent rOpenSci tech note. The V8 package provides an embedded JavaScript engine that can be used inside of R.



Use Cases

The following 14 works use/cite rOpenSci software:



In The News

Some nice words about bib2df from community member Philipp Ottolinger.


Someone found NLMR and landscapetools very useful! From community member Marco Sciaini


Brodie Gaslam wrote a blog post using our magick package (by Jeroen Ooms) Favicons From the Comfort of Your R Session



Call For Contributors

Part of the mission of rOpenSci is making sustainable software that users can rely on. Some software maintainers need to give up maintenance due to a variety of circumstances. When that happens we try to find new maintainers. We’ve had three recent examples of maintainer transitions within rOpenSci:

We’ve still got two packages in need of new maintainers:

  • webchem: The current maintainer of webchem, Eduard Szöcs, is looking for a new maintainer. See issue #155. Do ping Eduard in that issue and/or email us at info@ropensci.org
  • rsnps: The current maintainer would like to hand it over to someone with more expertise in the domain. Please get in touch with Scott if you’re interested.








Keep up with rOpenSci


Footnotes

  1. Lee, A. J., Jones, B. C., & DeBruine, L. M. (2019, January 21). Investigating the association between mating-relevant self-concepts and mate preferences through a data-driven analysis of online personal descriptions. https://doi.org/10.31234/osf.io/38zef 

  2. Lu, M., & Hedin, L. O. (2019). Global plant–symbiont organization and emergence of biogeochemical cycles resolved by evolution-based trait modelling. Nature Ecology & Evolution, 3(2), 239–250. https://doi.org/10.1038/s41559-018-0759-0 

  3. Zizka, A., Silvestro, D., Andermann, T., Azevedo, J., Duarte Ritter, C., Edler, D., … Antonelli, A. (2019). CoordinateCleaner: standardized cleaning of occurrence records from biological collection databases. Methods in Ecology and Evolution. https://doi.org/10.1111/2041-210x.13152 

  4. Rice, A., Šmarda, P., Novosolov, M., Drori, M., Glick, L., Sabath, N., … Mayrose, I. (2019). The global biogeography of polyploid plants. Nature Ecology & Evolution, 3(2), 265–273. https://doi.org/10.1038/s41559-018-0787-9 

  5. Sellgren, C. M., Gracias, J., Jungholm, O., Perlis, R. H., Engberg, G., Schwieler, L., … Erhardt, S. (2019). Peripheral and central levels of kynurenic acid in bipolar disorder subjects and healthy controls. Translational Psychiatry, 9(1). https://doi.org/10.1038/s41398-019-0378-9 

  6. Gill, B. A., Musili, P. M., Kurukura, S., Hassan, A. A., Goheen, J. R., Kress, W. J., … Kartzinel, T. R. (2019). Plant DNA-barcode library and community phylogeny for a semi-arid East African savanna. Molecular Ecology Resources. https://doi.org/10.1111/1755-0998.13001 

  7. Hicks, D. J., Coil, D. A., Stahmer, C. G., & Eisen, J. A. (2019). Network analysis to evaluate the impact of research funding on research community consolidation. https://doi.org/10.1101/534495 

  8. Jovanović, G., Romanić, S. H., Stojić, A., Klinčić, D., Sarić, M. M., Letinić, J. G., & Popović, A. (2019). Introducing of modeling techniques in the research of POPs in breast milk – A pilot study. Ecotoxicology and Environmental Safety, 172, 341–347. https://doi.org/10.1016/j.ecoenv.2019.01.087 

  9. Kay, S., Graves, A., Palma, J. H. N., Moreno, G., Roces-Díaz, J. V., Aviron, S., … Herzog, F. (2019). Agroforestry is paying off – Economic evaluation of ecosystem services in European landscapes with and without agroforestry systems. Ecosystem Services, 36, 100896. https://doi.org/10.1016/j.ecoser.2019.100896 

  10. Marcos, B., Gonçalves, J., Alcaraz-Segura, D., Cunha, M., & Honrado, J. P. (2019). Improving the detection of wildfire disturbances in space and time based on indicators extracted from MODIS data: a case study in northern Portugal. International Journal of Applied Earth Observation and Geoinformation, 78, 77–85. https://doi.org/10.1016/j.jag.2018.12.003 

  11. Martins, J., Magalhaes, C., Vieira, V., Rocha, M., & Osorio, N. S. (2019). HABIT - a webserver for interactive T cell neoepitope discovery. https://doi.org/10.1101/535716 

  12. Nadal-Ribelles, M., Islam, S., Wei, W., Latorre, P., Nguyen, M., de Nadal, E., … Steinmetz, L. M. (2019). Sensitive high-throughput single-cell RNA-seq reveals within-clonal transcript correlations in yeast populations. Nature Microbiology. https://doi.org/10.1038/s41564-018-0346-9 

  13. Rigg, C. A., Hurtado, L. A., Calzada, J. E., & Chaves, L. F. (2019). Malaria infection rates in Anopheles albimanus (Diptera: Culicidae) at Ipetí-Guna, a village within a region targeted for malaria elimination in Panamá. Infection, Genetics and Evolution, 69, 216–223. https://doi.org/10.1016/j.meegid.2019.02.003 

  14. Briz-Redón, Á. (2019). SpNetPrep: An R package using Shiny to facilitate spatial statistics on road networks. Research Ideas and Outcomes, 5. https://doi.org/10.3897/rio.5.e33521