rOpenSci HQ


Software 📦

CRAN: GitHub:

New Packages

  • The first version (v0.1.4) of baRcodeR after going through rOpenSci software review is on CRAN - the package deals with label creation for tracking and collecting data from biological samples. See the release notes for changes. Checkout the docs to get started. baRcodeR baRcodeR

New Versions

  • A new version (v2.0.1) of EML is on CRAN - read and write ecological metadata language files. See the release notes for changes. Checkout the docs to get started. EML EML

    improve error messages; pandoc fixes; improve docs

  • A new version (v0.2.21) of rglobi is on CRAN - R Interface to Global Biotic Interactions. See the release notes for changes. Checkout the vignette to get started. rglobi rglobi

    tests fixes

  • A new version (v0.5.0) 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

    now supports writing to disk mocking & mocking simple auth with httr works now

  • A new version (v0.4.0) 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

    now handles writing to disk; can now turn vcr completely off with a fxn call or env var; igoring specific requests now works; many httr fixes; much better docs for R6 classes

  • A new version (v0.2.7) of tradestatistics is on CRAN - open trade statistics api wrapper and utility program. See the release notes for changes. Checkout the docs to get started. tradestatistics tradestatistics
  • A new version (v0.4.0) of nlrx is on CRAN - setup, run and analyze NetLogo model simulations. See the release notes for changes. Checkout the vignettes to get started. nlrx nlrx

    new vignette; new crayon and EasyABC pkg deps; pandoc added to sys reqs

  • A new version (v2.1.1) of beastier is on CRAN - Provides a way to call BEAST2 from R. See the release notes for changes. Checkout the docs to get started. beastier beastier

    gains a vignette

  • A new version (v2.0.5) of mauricer is on CRAN - install BEAST2 packages. See the release notes for changes. Checkout the docs to get started. mauricer mauricer

    gains a vignette

  • A new version (v2.0.2) of tracerer is on CRAN - parse and analyze BEAST2 input files programmatically. See the release notes for changes. Checkout the vignettes to get started. tracerer tracerer

    gains a vignette; better error checking

  • A new version (v2.3.2) of beautier is on CRAN - create BEAST2 input files programmatically. See the release notes for changes. Checkout the vignettes to get started. beautier beautier
  • A new version (v7.8.0) of drake is on CRAN - a pipeline toolkit for reproducible computation at scale. See the release notes for changes. Checkout the docs to get started. drake drake

    dynamic branching implemented; new fxns subtargets, get_trace/read_trace, id_chr; bug fixes and many improvements

  • A new version (v0.5.0) of tidyhydat is on CRAN - Water Survey of Canada hydrometric data. See the release notes for changes. Checkout the vignettes to get started. tidyhydat tidyhydat

    bug fixes; allow downloading HYDAT to altnerative location; better docs

  • A new version (v0.6.1) of epubr is on CRAN - read EPUB File Metadata and Text. See the release notes for changes. Checkout the docs to get started. epubr epubr

    fix warnings from a package dependency

  • A new version (v0.3.4) of eia is on CRAN - API wrapper for US Energy Information Administration open data. See the release notes for changes. Checkout the docs to get started. eia eia
  • A new version (v1.2) of writexl is on CRAN - a portable, light-weight data frame to xlsx exporter. See the release notes for changes. Checkout the README to get started. writexl writexl

    update bundled libxlswriter to v0.8.8; xl_formula and xl_hyperlink now correctly support NA

  • A new version (v2.0.2) of skimr is on CRAN - compact and flexible summaries of data. See the release notes for changes. Checkout the vignettes to get started. skimr skimr
  • A new version (v0.2.4) of tiler is on CRAN - generate geographic and non-geographic map tiles from R. See the release notes for changes. Checkout the docs to get started. tiler tiler

    now precompiling vignettes; update gdal2tiles to v2.4; updated docs



Software Review ✔

We accept community contributed packages via our software review 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.


No new submissions or approved submissions.



On the blog

Jeroen Ooms wrote about How to precompute package vignettes or pkgdown articles.



Use Cases

The following 11 works use/cite rOpenSci software:





From the Forum

We have a discussion forum (using Discourse) for the rOpenSci community. It’s a really nice way to have conversations on the internet. From time to time we’ll highlight recent discussions of interest.



Call For Maintainers

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. Checkout our Contributing Guide for why and how to contribute to rOpenSci.

We’ve had six recent examples of maintainer transitions within rOpenSci:

We don’t have any packages looking for new maintainers - if you are a maintainer and want to hand over that role to someone else get in touch with us.






Keep up with rOpenSci


Footnotes

  1. Paudyal, N., Pan, H., Elbediwi, M., Zhou, X., Peng, X., Li, X., … Yue, M. (2019). Characterization of Salmonella Dublin isolated from bovine and human hosts. BMC Microbiology, 19(1). https://doi.org/10.1186/s12866-019-1598-0 

  2. Bohner, T., & Diez, J. (2019). Extensive mismatches between species distributions and performance and their relationship to functional traits. Ecology Letters. https://doi.org/10.1111/ele.13396 

  3. Defolie, C., Merkling, T., & Fichtel, C. (2019). Patterns and variation in the mammal parasite–glucorticoid relationship. Biological Reviews. https://doi.org/10.1111/brv.12555 

  4. Blischak, J. D., Carbonetto, P., & Stephens, M. (2019). Creating and sharing reproducible research code the workflowr way. F1000Research, 8, 1749. https://doi.org/10.12688/f1000research.20843.1 

  5. Millard, J. W., Freeman, R., & Newbold, T. (2019). Text‐analysis reveals taxonomic and geographic disparities in animal pollination literature. Ecography. https://doi.org/10.1111/ecog.04532 

  6. Hung, T., Rosales, M., Kurobe, T., Stevenson, T., Ellison, L., Tigan, G., … Teh, S. (2019). A pilot study of the performance of captive‐reared delta smelt Hypomesus transpacificus in a semi‐natural environment. Journal of Fish Biology. https://doi.org/10.1111/jfb.14162 

  7. Chalmandrier, L., Pansu, J., Zinger, L., Boyer, F., Coissac, E., Génin, A., … Thuiller, W. (2019). Environmental and biotic drivers of soil microbial β‐diversity across spatial and phylogenetic scales. Ecography. https://doi.org/10.1111/ecog.04492 

  8. Mishra, P., & Narayan Tripathi, L. (2019). Characterization of two‐dimensional materials from Raman spectral data. Journal of Raman Spectroscopy. https://doi.org/10.1002/jrs.5744 

  9. Christensen, A. P., & Kenett, Y. (2019, October 22). Semantic Network Analysis (SemNA): A Tutorial on Preprocessing, Estimating, and Analyzing Semantic Networks. https://doi.org/10.31234/osf.io/eht87 

  10. Zhong, B. H. W., Wiersma, J. J., Sheaffer, C. C., Steffenson, B. J., & Smith, K. P. (2019). Assessment of Winter Barley in Minnesota: Relationships among Cultivar, Fall Seeding Date, Winter Survival, and Grain Yield. Cftm, 5(1), 0. https://doi.org/10.2134/cftm2019.07.0055 

  11. Tada, I., Tsugawa, H., Meister, I., Zhang, P., Shu, R., Katsumi, R., … Chaleckis, R. (2019). Creating a Reliable Mass Spectral–Retention Time Library for All Ion Fragmentation-Based Metabolomics. Metabolites, 9(11), 251. https://doi.org/10.3390/metabo9110251