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ALA4R

Atlas of Living Australia (ALA) Data and Resources in R

The Atlas of Living Australia (ALA) provides tools to enable users of biodiversity information to find, access, combine and visualise data on Australian plants and animals; these have been made available from < https://ala.org.au/>. ALA4R provides a subset of the tools to be directly used within R. It enables the R community to directly access data and resources hosted by the ALA.

Travis-CI BuildStatus AppVeyor Build status codecov CRANStatus CRAN Downloads

The Atlas of Living Australia (ALA) provides tools to enable users of biodiversity information to find, access, combine and visualise data on Australian plants and animals; these have been made available from http://www.ala.org.au/. Here we provide a subset of the tools to be directly used within R.

ALA4R enables the R community to directly access data and resources hosted by the ALA.

The use-examples presented at the 2014 ALA Science Symposium are available in the package vignette, via (in R): vignette("ALA4R"), or browse it online.

Installing

Stable version from CRAN:

install.packages("ALA4R")

Or the development version from GitHub:

install.packages("devtools")
devtools::install_github("AtlasOfLivingAustralia/ALA4R")

On Linux you will first need to ensure that libcurl and v8 (version <= 3.15) are installed on your system — e.g. on Ubuntu/Debian, open a terminal and do:

sudo apt-get install libcurl4-openssl-dev libv8-3.14-dev

or install via the Software Centre.

Usage

See the online documentation at https://atlasoflivingaustralia.github.io/ALA4R/ including the package vignette.

News

ALA4R 1.6.2

  • updates to handle ALA API field changes
  • update vignette to be more robust to server outage

ALA4R 1.6.0

ALA4R 1.5.10

  • bugfixes

ALA4R 1.5.6

  • added biocache_version parameter to server configuration, to support use of ALA4R with other server instances (e.g. other national installations using the ALA server infrastructure)
  • minor bugfixes

ALA4R 1.5

  • updated code,examples and vignette for new ALA taxonomic backbone
  • "offline" method added to occurrences(), allowing download of larger datasets with more fields
  • fieldguide() function added
  • fields="all" option added to taxinfo_download()
  • ala_list() and ala_lists() functions added

ALA4R 1.24

  • better handling of text encoding (https://github.com/AtlasOfLivingAustralia/ALA4R/issues/15)

ALA4R 1.23

  • added image_number parameter to image_info()

ALA4R 1.21

  • added image_info() and occurrence_details() functions

  • added extra="all" and qa="all" options to occurrences()

ALA4R 1.20

  • fixed as_is behaviour in ala_fields().

  • usage of stringr functions now compatible with stringr v1.0.

  • parameter occurrence_count added to search_names().

  • tests added to tests/testthat.

ALA4R 1.191

  • improved parsing of field names in internal function check_fq() (https://github.com/AtlasOfLivingAustralia/ALA4R/issues/13).

ALA4R 1.19

  • internal function check_fq() throws a warning not an error if it thinks there is a problem with the fq string (https://github.com/AtlasOfLivingAustralia/ALA4R/issues/13).

ALA4R 1.18

  • for improperly classified taxa, the result$classification object returned by species_info() is now a data.frame (https://github.com/AtlasOfLivingAustralia/ALA4R/issues/11).

ALA4R 1.18

  • bugfix in species_info() (https://github.com/AtlasOfLivingAustralia/ALA4R/issues/11).

Reference manual

It appears you don't have a PDF plugin for this browser. You can click here to download the reference manual.
install.packages("ALA4R")

1.8.0 by Peggy Newman, 6 months ago

https://github.com/AtlasOfLivingAustralia/ALA4R

Report a bug at https://github.com/AtlasOfLivingAustralia/ALA4R/issues

Browse source code at https://github.com/cran/ALA4R

Authors: Peggy Newman [aut, cre] , Ben Raymond [aut] , Jeremy VanDerWal [aut] , Lee Belbin [aut] , Matilda Stevenson [aut] , Michael Sumner [ctb] , Tom August [ctb] , John Baumgartner [ctb]

Documentation:   PDF Manual  

MPL-2.0 license

Imports assertthat, data.table, digest, httr, jsonlite, sp, stringr, wellknown

Suggests ape, covr, dplyr, ggplot2, jpeg, knitr, mapdata, maps, maptools, phytools, rmarkdown, testthat, tidyr, vegan

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