JarCastingProject Group: de.julielab
JCoRe Flair NER AE
de.julielab : jcore-flair-ner-aeThis component uses the Zalando Flair toolkit (https://github.com/zalandoresearch/flair) for named entity recognition. Since FLAIR is a python library, this component must use python for the actual NER part.
Last Version: 2.5.0
Release Date:
JCoRe DTA Reader
de.julielab : jcore-dta-readerReader for DTA files (German digital humanities corpus)
Last Version: 2.5.0
Release Date:
JCoRe IEXML Consumer
de.julielab : jcore-iexml-consumerGenerates stand-off IEXML files as used in the Mantra challenge.
Last Version: 2.5.0
Release Date:
JCoRe Topics Writer
de.julielab : jcore-topics-writerWrites the topic weights, given the jcore-topic-indexing-ae running before, into a simple text file. Thus, the output consists of a sequency of double numbers encodes as strings, separated by tab characters. The topic ID is just the 0-based index of each number, from left to right in the written file. The first entry of each file is the document ID.
Last Version: 2.5.0
Release Date:
JCoRe Embedding Writer
de.julielab : jcore-embedding-writerThis component takes as input a number of precomputed embeddings that are compatible with Flair and a UIMA type. If any annotations of the given type are found in a CAS, the embedding vectors for the words covered by the annotations are computed and written to file.
Last Version: 2.5.0
Release Date:
JCoRe CORD-19 Reader
de.julielab : jcore-cord19-readerA reader for the JSON format delivered by the CORD-19 corpus.
Last Version: 2.5.0
Release Date:
JCoRe ACE Reader
de.julielab : jcore-ace-readerJCoRe ACE Reader. A Collection Reader that converts ACE-XML files to CAS objects.
Last Version: 2.5.0
Release Date:
Last Version: 2.5.0
Release Date:
JCoRe Acronym Tagger
de.julielab : jcore-acronym-aeArconym Tagger based on the SCHWARTZ & HEARST Algorithm: Ariel S. Schwartz and Marti A. Hearst: A Simple Algorithm For Identifying Abbreviation Definitions in Biomedical Text. In: Pacific Symposium on Biocomputing, 2003.
Last Version: 2.5.0
Release Date:
JCoRe Coordination Tagger Baseline
de.julielab : jcore-coordination-baseline-aeThis is a baseline approach to the Coordination Resolution problem. It is used in our jcore-coordination-ae, that is only accessible on GitHub due to being in an unfinished state.
Last Version: 2.5.0
Release Date:
JCoRe MUC7 Reader
de.julielab : jcore-muc7-readerJCoRe MUC7 Reader. A Collection Reader that converts MUC-7 files to CAS objects (only corefs).
Last Version: 2.5.0
Release Date:
jedis-parent
de.julielab : jedis-parentThis is an intermediate parent POM between the jcore-base parent and the components belonging to the Jena Document Information (JeDIS) infrastructure. This POM determines the version of CoStoSys to use.
Last Version: 2.5.0
Release Date:JCoRe Piped Format Writer
de.julielab : jcore-ppd-writerThis component writes CAS data to the piped text annotation format.
Last Version: 2.5.0
Release Date:JCoRe Mutation Finder AE
de.julielab : jcore-mutationfinder-aeAn analysis engine to recognize mentions of gene point mutations in document text. This is a wrapper around the original MutationFinder (http://mutationfinder.sourceforge.net/), published in the following paper: MutationFinder: A high-performance system for extracting point mutation mentions from text J. Gregory Caporaso, William A. Baumgartner Jr., David A. Randolph, K. Bretonnel Cohen, and Lawrence Hunter; Bioinformatics, 2007 23(14):1862-1865; doi:10.1093/bioinformatics/btm235;
Last Version: 2.5.0
Release Date:JCoRe XMI Writer
de.julielab : jcore-xmi-writerJCoRe XMI Writer. A CAS consumer that writes/converts CAS objects to XMI files.
Last Version: 2.5.0
Release Date:
JCoRe PubMed Central Reader
de.julielab : jcore-pmc-readerA UIMA reader for the Pubmed Central NXML format.
Last Version: 2.5.0
Release Date:
JCoRe ElasticSearch Consumer
de.julielab : jcore-elasticsearch-consumerThis component converts CAS annotations into a JSON format that originates from Solr's preanalyzed field type. At the JulieLab, there is an ElasticSearch plugin making this format accessible also by ElasticSearch. Configuration happens right in Java code. Note that the component is also able to generate perfectly valid ElasticSearch default JSON which does not require the plugin. Then, however, the preanalyzed data format cannot be used because this is the format that required the ElasticSearch plugin.
Last Version: 2.5.0
Release Date:JCoRe Event Flattener AE
de.julielab : jcore-event-flattener-aeThis component reads de.julielab.jcore.types.EventMention annotations and converts event structures into de.julielab.jcore.types.ext.FlattenedRelation annotation. The purpose of FlattenedRelations is to represent complex event structures in a more simple manner. This can be helpful for visualization or further processing.
Last Version: 2.5.0
Release Date:
JCoRe BioCreative II Gene Mention Reader
de.julielab : jcore-bc2gm-readerThis component allows to read gene annotations provided in the BioCreative II Gene Mention format.
Last Version: 2.5.0
Release Date:Last Version: 2.5.0
Release Date:
JCoRe XMI Database Writer
de.julielab : jcore-xmi-db-writerWrites CAS data in XMI format into a relational (PostgreSQL) database. It is possible to write the whole XMI for each document into the database. However, it is also possible to define a list of annotations that should be written into separate tables. The JCoRe XMI Database Reader can then be used to assemble XMI data from a given set of annotations.
Last Version: 2.5.0
Release Date:
JCoRe XMI Collection Reader
de.julielab : jcore-xmi-readerReads in XMI representions of CAS objects from files and converts them to CAS objects. Is able to read (g)zipped files and can recursively search subdirectories for XMI files to read.
Last Version: 2.5.0
Release Date:
JCoRe File Reader
de.julielab : jcore-file-readerReads simple text files; derived from UIMA example "FileSystemCollectionReader"
Last Version: 2.5.0
Release Date:JCoRe-Topic-Labeling-AE
de.julielab : jcore-topic-indexing-aeLabels LDA Topics estimated from project julielab-topic-modeling to infer document topics for PubMed articles
Last Version: 2.5.0
Release Date:
JCoRe Enzyme Commission Number AE
de.julielab : jcore-ecn-code-aeThis component recognizes Enzyme Comission (EC) numbers.
Last Version: 2.5.0
Release Date:
JCoRe Clinical Trials Reader
de.julielab : jcore-ct-readerA UIMA reader for clinical trials per ClinicalTrials.gov XML format.
Last Version: 2.5.0
Release Date:
JCoRe Lingpipe Porter Stemmer AE
de.julielab : jcore-lingpipe-porterstemmer-aeThis component applies the Porter stemming algorithm to all tokens in the CAS.
Last Version: 2.5.0
Release Date:
Last Version: 2.5.0
Release Date:
JCoRe Stanford Lemmatizer
de.julielab : jcore-stanford-lemmatizer-aeUIMA Wrapper for the Stanford CoreNLP Lemmatizer.
Last Version: 2.5.0
Release Date:
JCoRe Flair Token Embedding Annotator
de.julielab : jcore-flair-token-embedding-aeGiven a Flair compatible embedding file, computs the token embeddings of the CAS and sets them to the embeddingVector feature of the tokens.
Last Version: 2.5.0
Release Date:
Last Version: 2.5.1
Release Date:
Last Version: 2.4.1
Release Date:
Last Version: 1.0.1
Release Date:
LingPipe, Alias-i
de.julielab : aliasi-lingpipeThis is the original Lingpipe: http://alias-i.com/lingpipe/web/download.html There is one small change in the JaccardDistance class.
Last Version: 4.1.2-JL1.0
Release Date:JCoRe Mallet 2.0.9
de.julielab : jcore-mallet-2.0.9MALLET is a Java-based package for statistical natural language processing, document classification, clustering, topic modeling, information extraction, and other machine learning applications to text.
Last Version: 2.1.2
Release Date:
SegmentationEvaluator
de.julielab : julie-segment-evalEvaluation package for IOB based annotations.
Last Version: 1.0.7
Release Date:
secondstring-2003
de.julielab : secondstring-2003This is a copy of the SecondString library from https://sourceforge.net/projects/secondstring/ to obtain a usable Maven artifact.
Last Version: 0.0.1
Release Date:
Last Version: 1.0.0
Release Date:
Last Version: 1.0.0
Release Date:
Last Version: 1.1.0
Release Date:
JCoRe Stanford Lemmatizer
de.julielab : jcore-stanford-lemmatizerUIMA Wrapper for the Stanford CoreNLP Lemmatizer.
Last Version: 2.3.10
Release Date:
jcore-pipeline-builder-base
de.julielab : jcore-pipeline-builder-baseThe POM for the JCoRe Base projects.
Last Version: 0.2.8
Release Date:
Last Version: 0.2.8
Release Date:
jcore-pipeline-runner-assembly
de.julielab : jcore-pipeline-runner-assemblyThe POM for the JCoRe Base projects.
Last Version: 0.2.8
Release Date:
jcore-pipeline-runner-cpe
de.julielab : jcore-pipeline-runner-cpeThe POM for the JCoRe Base projects.
Last Version: 0.2.8
Release Date:JCoRe Pipeline Builder CLI
de.julielab : jcore-pipeline-builder-cliThe POM for the JCoRe Base projects.
Last Version: 0.2.8
Release Date:
jcore-pipeline-runner-base
de.julielab : jcore-pipeline-runner-baseThe POM for the JCoRe Base projects.
Last Version: 0.2.8
Release Date:
Last Version: 0.2.8
Release Date:
jcore-version-normalizer
de.julielab : jcore-version-normalizerThe Parent POM for all JULIE Lab projects.
Last Version: 1.1.0
Release Date:julielab-topic-modeling
de.julielab : julielab-topic-modelingThe Parent POM for all JULIE Lab projects.
Last Version: 1.9.2
Release Date: