A Java library for easy access to an NCBI taxonomy database.
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deploy
ncbitaxonomyClient
ncbitaxonomyServer
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LICENSE
README.md
ncbitaxonomy.iml
pom.xml

README.md

ncbitaxonomy

A Java library for easy access to an NCBI taxonomy database

  • Provides a Hibernate-based object-relational interface to the NCBI taxonomy database, and convenience classes for navigating it.
  • In particular, makes the NCBI taxonomy available as objects conforming to phyloutils APIs.

Documentation

Download

Maven is by far the easiest way to make use of ncbitaxonomy. Just add these to your pom.xml:

<repositories>
	<repository>
		<id>dev.davidsoergel.com releases</id>
		<url>http://dev.davidsoergel.com/nexus/content/repositories/releases</url>
		<snapshots>
			<enabled>false</enabled>
		</snapshots>
	</repository>
	<repository>
		<id>dev.davidsoergel.com snapshots</id>
		<url>http://dev.davidsoergel.com/nexus/content/repositories/snapshots</url>
		<releases>
			<enabled>false</enabled>
		</releases>
	</repository>
</repositories>

<dependencies>
	<dependency>
		<groupId>edu.berkeley.compbio</groupId>
		<artifactId>ncbitaxonomy</artifactId>
		<version>0.9</version>
	</dependency>
</dependencies>

If you really want just the jar, you can get the latest release from the Maven repo; or get the latest stable build from the build server.