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An example client showing how to connect to biovel services from within R

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biovel-R-client

An example client showing how to connect to biovel services from within R.

Here we show how a RESTful webservice can be invoked from within R, using the package RCurl.

This small example uses the NeXMLExtractor REST endpoint published in the Biodiversity catalogue to extract sequence data from a NeXML file. The data is returned in FASTA format, and a simple neighbor-joining tree is constructed from the data and subsequently plotted.

Prerequisites

An installation of R and the packages RCurl and phangorn.

Running it

From within R, execute the script 'client.R': source('client.R')

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An example client showing how to connect to biovel services from within R

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