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rfishbase (version 0.2-2)

R Interface to FishBASE

Description

A programmatic interface to fishbase.org.

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Version

Install

install.packages('rfishbase')

Monthly Downloads

873

Version

0.2-2

License

CC0

Issues

33

Pull Requests

0

Stars

117

Forks

42

Maintainer

Carl Boettiger

Last Published

January 7th, 2014

Functions in rfishbase (0.2-2)

familySearch

A function to find all fish that are members of a scientific Family
findSpecies

Returns the matching indices in the data given a list of species names
getPictures

getPictures from the fishbase database
getQuantTraits

Returns all quantitative trait values found in the morphology data
getIds

get fishbase id numbers
fishbase

Query the XML page of fishbase given a fishbase id and return the XML R object
getDepth

Returns available depth range data
fish_names

Return the scientific names, families, classes, or orders of the input data
getTrophicLevel

get trophic level
getLengthWeight

get the length weight table
clean_data

clean the fish.base data into pure ASCII
updateCache

Update the cached copy of fishbase data
habitatSearch

A function to search for the occurances of any keyword in habitat description
which_fish

which_fish is the the generic search function for fishbase a variety of description types
fish.data

A cached copy of extracted FishBase data, 14 Febuary 2013.
getMetabolism

get metabolism table (oxygen consumption).
getRefs

Returns the FishBase reference id numbers matching a query.
loadCache

Load an updated cache
getEnviroClimateRange

get the Environment, Climate, and Range of a species.
getSize

Returns available size data of specified type (length, weight, or age)
drop_nonascii

remove non-ASCII characters
getData

Description: a general function to loop over all fish ids to get data also drops the missing entries
labridtree

An example phylogeny of labrid fish