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julielab-java-utilities from group de.julielab (version 1.4.1)

Group: de.julielab Artifact: julielab-java-utilities
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julielab-parent from group de.julielab (version 2.5.0)

Group: de.julielab Artifact: julielab-parent
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jcore-db-test-utilities from group de.julielab (version 2.5.2)

Group: de.julielab Artifact: jcore-db-test-utilities
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julie-xml-tools from group de.julielab (version 0.6.2)

Group: de.julielab Artifact: julie-xml-tools
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costosys from group de.julielab (version 1.5.2)

A utility for managing documents stored in a PostgreSQL database. The documents are imported into a PostgreSQL DB as full texts with the goal to be able to retrieve the documents by their PubMedID efficiently. For more sophisticated tasks, a user configuration file can be delivered which can take control of the table schema to use, the PostgreSQL schema to use and the actual database server to connect to as well as the concrete database.

Group: de.julielab Artifact: costosys
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Artifact costosys
Group de.julielab
Version 1.5.2
Last update 11. June 2021
Newest version Yes
Organization JULIE Lab, Germany
URL https://github.com/JULIELab/costosys
License BSD-2-Clause
Dependencies amount 10
Dependencies guava, slf4j-api, jcore-xmi-splitter, commons-io, julie-xml-tools, assertj-core, testng, HikariCP, postgresql, julielab-java-utilities,
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jcore-jtbd-ae-medical-german from group de.julielab (version 2.5.1)

UIMA Wrapper for the JCoRe Token Boundary Detector with a model trained on the confidential FraMed corpus.

Group: de.julielab Artifact: jcore-jtbd-ae-medical-german
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Artifact jcore-jtbd-ae-medical-german
Group de.julielab
Version 2.5.1
Last update 29. March 2021
Newest version Yes
Organization JULIE Lab Jena, Germany
URL https://github.com/JULIELab/jcore-projects/tree/master/jcore-jtbd-ae-medical-german
License BSD-2-Clause
Dependencies amount 1
Dependencies jcore-jtbd-ae,
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jcore-pubmed-db-reader from group de.julielab (version 2.5.1)

An instantiation of the jcore-db-reader that uses the jcore-xml-mapper to retrieve and parse PubMed XML from a PostgreSQL database. The XML format of retrieved documents is expected to follow the PubMed/MEDLINE XML schema that was used beginning from 2017. I.e. the root document of a document must be PubmedArticle and not, as it was for MEDLINE until 2017, MedlineCitation.

Group: de.julielab Artifact: jcore-pubmed-db-reader
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Artifact jcore-pubmed-db-reader
Group de.julielab
Version 2.5.1
Last update 29. March 2021
Newest version Yes
Organization JULIE Lab, Germany
URL https://github.com/JULIELab/jcore-projects/tree/master/jcore-pubmed-db-reader
License BSD-2-Clause
Dependencies amount 3
Dependencies jcore-xml-db-reader, jcore-descriptor-creator, junit,
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jcore-banner-ae-biomedical-english from group de.julielab (version 2.5.1)

The JCoRe BANNER Gene Tagger wrapper with a model for biomedical english.

Group: de.julielab Artifact: jcore-banner-ae-biomedical-english
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jcore-jtbd-ae-biomedical-english from group de.julielab (version 2.5.1)

UIMA Wrapper for the JCoRe Token Boundary Detector with a model trained on a special biomedical corpus which consists of data from (manually annotated) material which we took from MedLine abstracts and a modified version of PennBioIE's underlying tokenization.

Group: de.julielab Artifact: jcore-jtbd-ae-biomedical-english
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Artifact jcore-jtbd-ae-biomedical-english
Group de.julielab
Version 2.5.1
Last update 29. March 2021
Newest version Yes
Organization JULIE Lab Jena, Germany
URL https://github.com/JULIELab/jcore-projects/tree/master/jcore-jtbd-ae-biomedical-english
License BSD-2-Clause
Dependencies amount 1
Dependencies jcore-jtbd-ae,
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jcore-linnaeus-species-ae-genera-species-proxies-dicts from group de.julielab (version 2.5.1)

This project is a resource for the JCoRe Linnaeus Annotator. The dictionaries contained herein are used for the recognition of concrete species names in text, e.g. "human", "mouse", "n. furzeri", "c. elegans" etc as well as species hints, i.e. indirect clues to a species like the word "patient" which most likely refers to a human. Additionally to such rather clear proxies, this project also includes a small dictionary containing maximum-frequency-proxies for genus expressions like "Drosophila" which will be mapped to "D. melanogaster". For the task of only finding concrete species names in text, there is the project jcore-linnaeus-species-ae-species-dict.

Group: de.julielab Artifact: jcore-linnaeus-species-ae-genera-species-proxies-dicts
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Artifact jcore-linnaeus-species-ae-genera-species-proxies-dicts
Group de.julielab
Version 2.5.1
Last update 29. March 2021
Newest version Yes
Organization not specified
URL Not specified
License BSD-2-Clause
Dependencies amount 2
Dependencies jcore-linnaeus-species-ae-proxies-dict, junit,
There are maybe transitive dependencies!

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