zbmed-semtec

All

32 repositories

specifications
Public
Issue tracker, technical wiki, and example markup
HTML
•52•0•0•0•Updated Nov 25, 2024Nov 25, 2024
mlentory-etl-pipeline
Public
This repository aims at exploring APIs from different ML-related platforms so we can harvest and harmonize data from them
Jupyter Notebook
•
GNU General Public License v3.0
•1•3•0•0•Updated Nov 25, 2024Nov 25, 2024
zbmed-semtec.github.io
Public
GitHub pages for the Semantic Technologies team at ZB MED
Python
•
MIT License
•1•0•0•1•Updated Nov 21, 2024Nov 21, 2024
bioschemas-dde
Public
scripts for automated maintenance of bioschemas specifications in the Data Discovery Engine
Jupyter Notebook
•4•0•0•0•Updated Nov 19, 2024Nov 19, 2024
bioschemas.github.io
Public
Files for the Bioschemas website.
HTML
•72•0•0•1•Updated Nov 19, 2024Nov 19, 2024
relish-preprocessing
Public
ontoclue
Python
•
GNU General Public License v3.0
•0•0•0•0•Updated Nov 17, 2024Nov 17, 2024
bheu24-cm4mlds
Public
BioHackathon Europe 2024 repository to explore Croissant ML metadata extraction from HuggingFace
Jupyter Notebook
•
GNU General Public License v3.0
•1•3•0•0•Updated Nov 7, 2024Nov 7, 2024
mini_hackathon_AskOrkg
Public
A repository for testing different technologies related to information retrieval inspired in the AskORKG project.
Python
•
GNU General Public License v3.0
•0•0•0•0•Updated Oct 22, 2024Oct 22, 2024
word2doc2vec-doc-relevance
Public
An approach exploring and assessing literature-based doc-2-doc recommendations using word2vec combined with doc2vec, and applying it to TREC and RELISH datasets
python word-embeddings document-similarity document-embeddings phase-one ontoclue doc2doc-relevance
Python
•
GNU General Public License v3.0
•0•0•1•1•Updated Sep 30, 2024Sep 30, 2024
doc2vec-doc-relevance
Public
An approach exploring and assessing literature-based doc-2-doc recommendations using a doc2vec and applying to the RELISH dataset.
python document-similarity document-embeddings phase-one ontoclue doc2doc-relevance
Python
•
GNU General Public License v3.0
•0•0•2•1•Updated Sep 23, 2024Sep 23, 2024
wmd-word2vec
Public
An approach exploring and assessing literature-based doc-2-doc recommendations using word2vec and word mover's distance and applying it to RELISH dataset.
python word-embeddings document-similarity phase-one word-movers-distance ontoclue doc2doc-relevance
Python
•
GNU General Public License v3.0
•0•0•1•1•Updated Sep 23, 2024Sep 23, 2024
bioschemas-ghpages-markup-tutorial
Public
A tutorial on how to add Bioschemas markup to GitHub pages
Other
•14•1•0•0•Updated Sep 20, 2024Sep 20, 2024
deleteme
Public
A dummy repo to try out good practices changes and effects in metadata
0•0•0•0•Updated Sep 19, 2024Sep 19, 2024
somef-fork
Public
Use of SOftware Metadata Extraction Framework (SOMEF) for the use case of Software Management Plans
Jupyter Notebook
•
MIT License
•22•0•0•1•Updated Sep 3, 2024Sep 3, 2024
in-silico-protocols-4ML
Public
Semantically enriched in-silico protocols for ML experiments to improve FAIRness, transparency and reproducibility
Other
•0•0•0•0•Updated Aug 29, 2024Aug 29, 2024
maSMPs
Public
Metadata model for machine-actionable Software Management Plans
metadata vocabulary smp schemaorg bioschemas
Jupyter Notebook
•
Other
•2•3•2•0•Updated Aug 28, 2024Aug 28, 2024
KGE_literature_relevance_assessment
Public
Lukas Thesis project for a KGE approach on OntoClue
Python
•
GNU General Public License v3.0
•0•0•0•0•Updated Jul 24, 2024Jul 24, 2024
m4ml
Public
A data repository to save ML-related metadata crosswalks
Other
•2•5•1•0•Updated Jul 9, 2024Jul 9, 2024
mock_recommendation_system
Public
Python
•
GNU General Public License v3.0
•0•0•1•0•Updated May 28, 2024May 28, 2024
hybrid-pre-doc2vec-doc-relevance
Public
Hybrid approach combining dictionary-based NER and doc2vec
python ner document-similarity document-embeddings phase-one ontoclue doc2doc-relevance
Jupyter Notebook
•
GNU General Public License v3.0
•0•0•5•0•Updated Apr 10, 2024Apr 10, 2024
w3id.org
Public
Website source code for w3id.org.
HTML
•1.2k•0•0•0•Updated Apr 8, 2024Apr 8, 2024
FAIRification-game-4RS-data
Public
This repository is used to mock research software repositories (via folders) used in the "FAIRification game for Research Software".
Python
•
Other
•0•0•0•0•Updated Nov 7, 2023Nov 7, 2023
protein-function-embeddings-thesis
Public
thesis word-embeddings document-embeddings protein-function
Python
•
GNU General Public License v3.0
•0•0•0•0•Updated Aug 17, 2023Aug 17, 2023
mowl-graph2doc2vec
Public
A repository to explore the use of ontology-based graphs (generated with MOWL) as background knowledge for scientific publications.
Jupyter Notebook
•
GNU General Public License v3.0
•4•0•0•0•Updated Apr 1, 2023Apr 1, 2023
TREC-doc-2-doc-relevance
Public
doc-2-doc relevance assessment on PMIDs used in the TREC 2005 Genomics track
trec end-user-interface doc2doc-relevance manual-annotation
Jupyter Notebook
•
MIT License
•0•0•1•0•Updated Nov 21, 2022Nov 21, 2022
topic-categorization-system
Public
Topic categorization on scientific papers to improve information retrieval in the biomedical domain.
thesis topic-categorization mesh-vocabulary
Jupyter Notebook
•
GNU General Public License v3.0
•0•0•2•0•Updated Nov 13, 2022Nov 13, 2022
dome-galaxy-training
Public
Training materials about the DOME recommendations with a Galaxy tutorial as use case
HTML
•
Other
•0•0•0•0•Updated Jun 1, 2022Jun 1, 2022
BioMedSem-IR-KD
Public
A course on Biomedical Semantics, Information Retrieval and Knowledge Discovery
rdf semantic-web biomedical-informatics linked-open-data life-sciences lecture-material
HTML
•
Other
•0•1•0•0•Updated Jun 1, 2022Jun 1, 2022
sample-smp-code-repo
Public
Sample code repository to use as an example to extract metadata for ELIXIR SMPs
R
•
MIT License
•0•0•0•0•Updated Feb 15, 2022Feb 15, 2022
bioschemas-github-markup-example
Public
Repository hosting examples of markup added to GitHub pages, mainly used for tutorials
Jupyter Notebook
•
MIT License
•1•0•1•0•Updated Jan 28, 2022Jan 28, 2022