Mar 13, 2017
Software
Releases
- A new version (
v0.2.0
) ofrandgeo
is on CRAN. This version is thanks to Noam Ross - he improved internals of the package to have more appropriate/proper random shapes. See release notes for the details. Repository on GitHub. - A new version (
v0.1.2
) ofgeojson
is on CRAN. This version is a bug fix patch - do install this version as the bug did cause problems for some users. See release notes for the details. Repository on GitHub. - A new version (
v0.6.0
) ofhddtools
is on CRAN. See thehddtools
NEWS file for the details. Repository on GitHub. - A new version (
v3.0.3
) ofrotl
is on CRAN. See release notes for the details. Repository on GitHub. - A new version (
v0.3.0
) ofpangaear
is on CRAN. This version adds a new functionpg_search_es()
for searching the Pangaea Elasticsearch instance - make some minor improvements - and important for forpg_search()
as they changed their paging strategy. See release notes for the details. Repository on GitHub. - A new version (
v0.1.5
) ofrinat
is on CRAN. See release notes for the details. Repository on GitHub.
Onboarding
We accept community contributed packages via our onboarding system - a software review system, sorta like scholarly paper review, but way better. We’ll highlight new packages here that have come through this system. 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 we have a new form you can fill out, and we’ll ping you when there’s a submission that fits in your area of expertise.
There haven’t been any submissions or approved packages since last news - it’s a good time to submit your package! At least ask questions if you’re not sure how it works, or if your package is a good fit.
On the blog
Our own Jeroen Oooms came out with a post on his package mongolite
Release mongolite 1.0 - it’s a great interface to the NoSQL database MongoDB. Jeroen has done a great job on mongolite
, including thorough documentation.
Onboarding series
We’re doing a series of guest blog posts for packages that have gone through our software review process at ropensci/onboarding.
The 3rd post came out last week, and was by Claudia Vitolo on her package hddtools
- Discover hydrological data using the hddtools R package.
2nd: Maëlle Salmon on her package ropenaq
- ropenaq, a breath of fresh air/R.
1st: Sean Hughes on his package plater
- From a million nested ifelse
s to the plater package.
We’ll have more posts in this series coming out soon - keep an eye out.
Use Cases
Two papers use/cite rOpenSci packages:
- Odonnel et al. used our package taxize in their paper Spatial distribution of environmental DNA in a nearshore marine habitat 1
- Mohiuddin et al. used our package taxize in their paper Shotgun metagenomic sequencing reveals freshwater beach sands as reservoir of bacterial pathogens 2
- Rai et al. used our package rgbif in their paper Single locus genotyping to track Leishmania donovani in the Indian subcontinent: Application in Nepal 3
- Paul Oldham used our package rplos in a book chapter on Scientific Literature with rplos 4
- Paul Oldham used the plotly package in a book chapter on Patent Analytics with Plotly 5
- Ben Marwick referenced rOpenSci in his book chapter Using R and Related Tools for Reproducible Research in Archaeology 6
Keep up with rOpenSci news
There are a number of ways to keep up with what rOpenSci is doing:
- Mailing list: Sign up with an email address to get new blog posts sent to your inbox -> ropensci.org/#subscribe
- rOpenSci on Twitter: we’re @ropensci
- The rOpenSci blog at ropensci.org/blog - you can subscribe in any RSS aggregator, or manually via https://ropensci.org/feed.xml. We also announce new blog posts on our Twitter account.
- rOpenSci news feed at https://news.ropensci.org/feed.xml
Footnotes
-
O’Donnell JL, Kelly RP, Shelton AO, Samhouri JF, Lowell NC, Williams GD. (2017) Spatial distribution of environmental DNA in a nearshore marine habitat. PeerJ 5:e3044 https://doi.org/10.7717/peerj.3044 ↩
-
Mohiuddin, M. M., Salama, Y., Schellhorn, H. E., & Golding, G. B. (2017). Shotgun metagenomic sequencing reveals freshwater beach sands as reservoir of bacterial pathogens. Water Research. https://doi.org/10.1016/j.watres.2017.02.057 ↩
-
Rai, K., Bhattarai, N. R., Vanaerschot, M., Imamura, H., Gebru, G., Khanal, B., … Van der Auwera, G. (2017). Single locus genotyping to track Leishmania donovani in the Indian subcontinent: Application in Nepal. PLOS Neglected Tropical Diseases, 11(3), e0005420. https://doi.org/10.1371/journal.pntd.0005420 ↩
-
Oldam, P. (2017). Scientific Literature with rplos; in “The WIPO Manual on Open Source Patent Analytics” https://wipo-analytics.github.io/index.html ↩
-
Oldam, P. (2017). Patent Analytics with Plotly; in “The WIPO Manual on Open Source Patent Analytics” https://wipo-analytics.github.io/index.html ↩
-
Marwick, B. Using R and Related Tools for Reproducible Research in Archaeology. in Kitzes, J., Turek, D., & Deniz, F. (Eds.). (2017). The Practice of Reproducible Research: Case Studies and Lessons from the Data-Intensive Sciences. Oakland, CA: University of California Press. https://www.practicereproducibleresearch.org/ ↩