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BridgeDb

Authors: Van Iersel, Martijn P.; Pico, Alexander R.; Kelder, Thomas; Gao, Jianjiong; Isaac, Ho; Hanspers, Kristina; Conklin, Bruce R.; +1 Authors
Abstract

First BridgeDb Java release funded by the NWO Open Grant (203.001.121), aimed at making the build process more robust (and adding a new developer). It updates a number of dependencies (Apache Velocity, Apache Derby, JUnit, Log4j, and MySQL driver) and add the first bits of Bioregistry.io support. This release also removes the BridgeDb Webservice, which is now available from a separate GitHub repository. The Xref.toString() now returns whether the identifier is primary or not, which is now also retrieved from the Derby database. It also update to the BridgeDb Datasources 20220526 release, which includes the Bioregistry prefixes for all data sources. The below examples assume you need just org.bridgedb.bio, and you can use it as template and modify to add other modules. For Maven: <dependencies> <dependency> <groupId>org.bridgedb</groupId> <artifactId>org.bridgedb.bio</artifactId> <version>3.0.14</version> </dependency> </dependencies> For Gradle: compile group: 'org.bridgedb', name: 'org.bridgedb.bio', version: '3.0.14' For Ivy: <dependency org="org.bridgedb" name="org.bridgedb.bio" rev="3.0.14"/> For Buildr: 'org.bridgedb:org.bridgedb.bio:jar:3.0.14'

If you use this software, please cite it as below.

Keywords

Biological data, Genes, identifier mapping, Metabolites, Proteins

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selected citations
These citations are derived from selected sources.
This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Citations provided by BIP!
popularity
This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
BIP!Popularity provided by BIP!
influence
This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Influence provided by BIP!
impulse
This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.
BIP!Impulse provided by BIP!
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