Download JAR files tagged by medline with all dependencies

jcore-xml-mapper from group de.julielab (version 2.6.2)

A generic XML mapper to create CAS instances reflecting contents of XML documents. Especially created to read PubMed/Medline XML.

Group: de.julielab Artifact: jcore-xml-mapper
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1 downloads

Artifact jcore-xml-mapper
Group de.julielab
Version 2.6.2
Last update 20. February 2024
Organization JULIE Lab Jena, Germany
URL https://github.com/JULIELab/jcore-base/tree/master/jcore-xml-mapper
License BSD-2-Clause
Dependencies amount 3
Dependencies jcore-types, julie-xml-tools, junit-jupiter-engine,
There are maybe transitive dependencies!

jcore-opennlp-token-ae-biomedical-english from group de.julielab (version 2.6.0)

This project employes the JCoRe OpenNLP tokenizer wrapper with a model trained on the PennBioIE corpus and data from MedLine abstracts.

Group: de.julielab Artifact: jcore-opennlp-token-ae-biomedical-english
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0 downloads

Artifact jcore-opennlp-token-ae-biomedical-english
Group de.julielab
Version 2.6.0
Last update 18. December 2022
Organization JULIE Lab Jena, Germany
URL https://github.com/JULIELab/jcore-projects/tree/master/jcore-opennlp-token-ae-biomedical-english
License BSD-2-Clause
Dependencies amount 2
Dependencies jcore-opennlp-token-ae, junit-jupiter-engine,
There are maybe transitive dependencies!

jcore-jsbd-ae-biomedical-english from group de.julielab (version 2.6.1)

UIMA Wrapper for the JCoRe Sentence Boundary Detector (jcore-jsbd-ae) with a model trained on data from both the GENIA and PennBioIE corpus as well as additional material from MedLine abstracts.

Group: de.julielab Artifact: jcore-jsbd-ae-biomedical-english
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Artifact jcore-jsbd-ae-biomedical-english
Group de.julielab
Version 2.6.1
Last update 20. February 2024
Organization JULIE Lab Jena, Germany
URL https://github.com/JULIELab/jcore-projects/tree/master/jcore-jsbd-ae-biomedical-english
License BSD-2-Clause
Dependencies amount 2
Dependencies jcore-jsbd-ae, junit-jupiter-engine,
There are maybe transitive dependencies!

jcore-pubmed-db-reader from group de.julielab (version 2.6.1)

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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0 downloads

Artifact jcore-pubmed-db-reader
Group de.julielab
Version 2.6.1
Last update 20. February 2024
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-jupiter-engine,
There are maybe transitive dependencies!

jcore-xml-reader from group de.julielab (version 2.6.1)

A Collection Reader that employs the JCoRe XML mapper to read XML documents. A mapping file must be delivered to determine which XML file elements have to be converted to which CAS annotation types and features. This is the base component for the JCoRe PubMed and Medline readers.

Group: de.julielab Artifact: jcore-xml-reader
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15 downloads

Artifact jcore-xml-reader
Group de.julielab
Version 2.6.1
Last update 18. December 2022
Organization JULIE Lab, Germany
URL https://github.com/JULIELab/jcore-base/tree/master/jcore-xml-reader
License BSD-2-Clause
Dependencies amount 6
Dependencies jcore-xml-mapper, slf4j-api, julielab-java-utilities, uima-ducc-user, assertj-core, junit-jupiter-engine,
There are maybe transitive dependencies!

jcore-medline-db-reader from group de.julielab (version 2.6.0)

An instantiation of the jcore-db-reader that uses the jcore-xml-mapper to retrieve and parse MEDLINE XML from a PostgreSQL database. The XML format of retrieved documents is expected to follow the MEDLINE XML schema that was used until inclusive 2016. I.e. the root element of MEDLINE documents must be MedlineCitation and not, as it is since 2017, PubmedArticle.

Group: de.julielab Artifact: jcore-medline-db-reader
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0 downloads

Artifact jcore-medline-db-reader
Group de.julielab
Version 2.6.0
Last update 18. December 2022
Organization JULIE Lab, Germany
URL https://github.com/JULIELab/jcore-projects/tree/master/jcore-pubmed-db-reader
License BSD-2-Clause
Dependencies amount 2
Dependencies jcore-xml-db-reader, jcore-descriptor-creator,
There are maybe transitive dependencies!

jcore-jtbd-ae-biomedical-english from group de.julielab (version 2.6.0)

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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0 downloads

Artifact jcore-jtbd-ae-biomedical-english
Group de.julielab
Version 2.6.0
Last update 18. December 2022
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 2
Dependencies jcore-jtbd-ae, junit-jupiter-engine,
There are maybe transitive dependencies!

jcore-medline-reader from group de.julielab (version 2.6.0)

Leveraging the JCoRe XML Reader, this project employs a Medline-enabled mapping file to map Medline XML documents to CAS instances. The input is a directory of single XML files, each containing exactly one XML MedlineCitation. The XML format is the one used by NCBI when downloading Medline documents in large batches from the NCBI FTP server. However, the component currently expects single documents instead of whole MedlineCitationSets containing sets of MedlineCitations.

Group: de.julielab Artifact: jcore-medline-reader
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0 downloads

Artifact jcore-medline-reader
Group de.julielab
Version 2.6.0
Last update 18. December 2022
Organization JULIE Lab, Germany
URL https://github.com/JULIELab/jcore-projects/tree/master/jcore-medline-reader
License BSD-2-Clause
Dependencies amount 3
Dependencies jcore-descriptor-creator, jcore-xml-reader, junit-jupiter-engine,
There are maybe transitive dependencies!

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