fusion-jena/computational-reproducibility-pmc

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Created over 2 years ago
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fusion-jena/computational-reproducibility-pmc

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automatic-KG-creation-with-LLM

Automatic Ontology and Knowledge Graph construction with LLM

JenTab

Matching Tabular Data to Knowledge Graphs

JaroWinklerSimilarity

A Java implementation of the Jaro Winkler Similarity, which is optimized for the search of similar strings in a large set of strings.

MLProvLab

Provenance Management for Data Science Notebooks

Jupyter Notebook

ReproduceMeGit

A visualization tool for analyzing the reproducibility of Jupyter Notebooks

QuestionsMetadataBiodiv

repository for a question corpus for the biodiversity domain, scripts for analyzing metadata in data repositories

Reproduce-DLmethods-Biodiv

This Repo contains the data and codes that were used to extract and analyse the reproducibility information of Deel Learning methods from publications in the Biodiversity domain.

ScholarLensViz

Visualization of Semantic User Profiles

BiodivNERE

Underlying scripts to construct BiodivNER+RE corpora

BiodivBERT

BERT for Biodiversity domain including 2 downstream tasks: Named Entity Recognition (NER) and Relation Extraction (RE)

Jupyter Notebook

unit-ontology-review

Enables an evaluation of ontologies in the field of measurement units.

Meta2KG

This project aims at the automatic transformation of metadata XML files to a knowledge graph. Such transformation is based on embedding-based similarity

ReproduceMeON

ReproduceMe Ontology Network (ReproduceMeON)

daisi-semantic-search

Semantic Search Extension for Dataset Search UI [Dai:Si]

wiki-category-consistency

Source code for Evaluating the consistency between Wikipedia and Wikidata categories

CoMerger

Holistic Multiple Ontologies Merge

MLProvCodeGen

Provenance-based Custom Code Generation of Machine Learning Experiments in Jupyter Notebooks

Jupyter Notebook

GerPS-onto

Documents (modeling and evaluation) related to the GerPS-onto (An ontology for German public service processes) together with the code for its automatic population with instances

entity-retrieval-evaluation

Experiments on entity based search

semantic-assistants-2.0

SA2.0 - An upgraded version of the Semantic Assistants Framework

KeySearchWiki

Source code for generating KeySearchWiki - An Automatically Generated Dataset for Keyword Search over Wikidata

ISTMINER

This project is used to keep information about ISTMINER

data-augmentation-ner-legal

Source Code for Evaluating Data Augmentation for Named Entity Recognition over the German Legal Domain

comparision-keyword-semantic-search

Supplementary material of a comparative study between a keyword based search and a semantic search in a data portal for biodiversity research

WormsClient

A Java client for the World Register of Marine Species REST API (http://www.marinespecies.org/rest/)

ReproducibilitySurvey

Survey on Understanding Experiments and Research Practices for Reproducibility: Material and Results

Jupyter Notebook

HoH_Core_Ontology

semantic-search-usability-analysis

Supplementary material for a usability evaluation of a semantic search for biological datasets

Jupyter Notebook

abecto

An ABox Evaluation and Comparison Tool for Ontologies.

iKNOW

Leveraging Knowledge Graphs for iDiv and Biodiversity

befchina-test-collection

Test collection for dataset search in biodiversity research (with a dataset corpus from BEF-China)

fairjupyter

FAIR Jupyter: a knowledge graph for semantic sharing and granular exploration of a computational notebook reproducibility dataset.

Jupyter Notebook

DaiSi

[Dai:Si] is a framework for dataset search with a middleware (NodeJS) and a frontend (Angular). Easy to adjust for your own search index.

BiodivTagger

Ontology-Based Information Extraction for Scholarly Data in Biodiversity Research

LakeBaseSemanticService

A REST service application providing annotation, classification and search functionality utilizing semantic web technologies.

OAPT

This is the description and implementation of the Ontology Analysis and Partitioning Tool (OAPT), which is developed and implemented within the AquaDiva project (http://www.aquadiva.uni-jena.de/)

BioPortal-Ontology-Partitioning