Oct 10, 2016
Software
New packages
- A new package
graphql
(v1.0
) is on CRAN.graphql
provides bindings to the libgraphqlparser C++ library. Repository on GitHub - A new package
plater
(v1.0.0
) is on CRAN.plater
provides tools for interacting with data from experiments done in microtiter plates. You can easily read in plate-shaped data and convert it to tidy format, combine plate-shaped data with tidy data, and view tidy data in plate shape. Maintained by Sean Hughes. For an introduction to the package see the introductory vignette. Repository on GitHub
Releases
- A new version (
0.5.4
) ofspocc
is on CRAN. See release notes for changes. This version has a number of bug fixes, and forces newer versions of some dependencies, also which have had fixes in them. Do upgrade! Repository on GitHub. - A new version (
0.2.4
) ofpangaear
is on CRAN. See release notes for changes. This version improves documentation, and changes internal code that fetches data from the website as Pangaea website structure has changed.pg_search()
in older versions won’t work now, do upgrade. Repository on GitHub. - A new version (
0.6.4
) ofrnoaa
is on CRAN. See release notes for changes. This version ofrnoaa
gains a functionisd_read
to let users read in ISD data in following R sessions (whereasisd()
downloads and reads data). All the functions inrnoaa
that used to download from NOAA FTP servers into files in your home directory now userappdirs
to determine where to download based on your OS. Repository on GitHub. - A new version (
0.9.5
) ofrgbif
is on CRAN. See release notes for changes.occ_search()
gains facetting functionality, and a new functionocc_facet()
to only do facetting, with no occurrence data; see examples in the docs. A suite of new parameters have been added toocc_search()
andocc_data()
. Repository on GitHub. - A new version (
0.4.0
) ofsolrium
is on CRAN. See release notes for changes. Many minor improvements, including replacingXML
withxml2
, fixes tosolr_group()
, and now usingtibble
for compact data.frame representation rather than custom internal code. Repository on GitHub. - A new version (
0.5.0
) ofrbison
is on CRAN. See release notes for changes. Repository on GitHub. - A new version (
2.1
) ofhunspell
is on CRAN. See NEWS for changes. Repository on GitHub. - A new version (
1.4.5
) ofRSelenium
is on CRAN. See NEWS for changes. Repository on GitHub.
Package notes
The package spoccutils
is now archived on CRAN. It was originally broken out of spocc
for two reasons: 1) to allow spocc
to focus on only retrieving species occurrence data, and 2) to make it easy to clean and map data from spocc
outputs. We learned through time that the R community could use more general purpose tools for cleaning and mapping species occurrence data; that is, tools that aren’t tied to the output of spocc
, but any species occurrence data. Check out mapr for mapping species occurrence data with lots of different formats (base plots, ggplot, ggmap, leaflet, etc.) and scrubr for cleaning species occurrence data.
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!
The following packages recently went through our onboarding process and have been approved:
- plater > Tools to Make it Easy to Work with Microtiter Plate-Shaped Data
- Author: Sean Hughes
- Issue: ropensci/onboarding#60
- Reviewers:
- rdefra > Interact with the UK AIR Pollution Database from DEFRA
- Author: Claudia Vitolo
- Issue: ropensci/onboarding#68
- Reviewers:
The following was recently submitted to our onboarding process and is undergoing review:
- refimpact > API Wrapper for the UK REF 2014 Impact Case Studies Database
- Author: Perry Stephenson
- Issue: ropensci/onboarding#78
- Reviewers: not assigned yet
Use cases
One recent book review cites rOpenSci:
- Lovelace mentions rOpenSci in his book review of The Data Revolution: Big Data, Open Data, Data Infrastructures and Their Consequences
The Global Biodiversity Information Facility (GBIF) is holding a competition for apps that use GBIF data. It’s called the Ebbe Nielsen Challenge. We make the most widely used client for acquiring GBIF data: rgbif. rgbif
is used in at least the following entries to the competition:
- GBIFgaps - source code - uses rgbif
- BioGeoBias - source code - uses rgbif
- Species Index of Primary Biodiversity Information - (full disclosure: I’m (Scott Chamberlain) on the team for this one) - uses taxize and rgbif
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.