Bio-Ontology Research Group

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205 repositories

catE
Public
Lattice-preserving ALC ontology embeddings
category-theory neuro-symbolic-ai ontology-embedding approximate-reasoning
Python
•2•1•0•0•Updated Dec 19, 2024Dec 19, 2024
pangenome
Public
Pangenome workflow in CWL
Common Workflow Language
•
BSD 3-Clause "New" or "Revised" License
•1•1•0•0•Updated Dec 18, 2024Dec 18, 2024
mowl
Public
mOWL: Machine Learning library with Ontologies
machine-learning ontologies neural-symbolic neuro-symbolic neurosymbolic
Python
•
BSD 3-Clause "New" or "Revised" License
•4•62•6•1•Updated Dec 8, 2024Dec 8, 2024
DELE
Public
Python
•
MIT License
•0•0•0•0•Updated Nov 30, 2024Nov 30, 2024
mrsa-sequences
Public
Arvados sequence uploader and analyzer for MRSA project
Python
•1•0•2•8•Updated Nov 27, 2024Nov 27, 2024
deepgometa
Public
Python
•
BSD 3-Clause "New" or "Revised" License
•0•6•0•0•Updated Nov 19, 2024Nov 19, 2024
Genomic_context
Public
Protein function prediction (GO classes) using genomic context
Python
•0•2•0•0•Updated Nov 4, 2024Nov 4, 2024
PU-GO
Public
Predicting protein functions using positive-unlabeled ranking with ontology-based priors
protein-function-prediction positive-unlabeled-learning
Python
•2•3•1•0•Updated Oct 26, 2024Oct 26, 2024
Causal-relations-between-diseases
Public
0•1•0•0•Updated Oct 2, 2024Oct 2, 2024
jcel
Public
Reasoner for the description logic EL+.
Java
•
Apache License 2.0
•6•1•0•0•Updated Sep 28, 2024Sep 28, 2024
hguploader
Public
Common Workflow Language
•0•0•0•0•Updated Sep 20, 2024Sep 20, 2024
FunEq
Public
Lean
•
Creative Commons Zero v1.0 Universal
•0•1•0•0•Updated Sep 17, 2024Sep 17, 2024
deepgo2
Public
Python
•
BSD 3-Clause "New" or "Revised" License
•4•33•7•0•Updated Sep 11, 2024Sep 11, 2024
reasoning-augmented-generation
Public
Reasoning Augmented Generation - BH 2024
Python
•0•0•0•0•Updated Aug 30, 2024Aug 30, 2024
STARVar
Public
STARVar:Symptom based Tool for Automatic Ranking of Variants using evidence from literature and genomes
text-mining genomics-data variant-priorisation variant-ranking
Python
•1•5•0•1•Updated Jul 30, 2024Jul 30, 2024
gda_analysis
Public
Python
•1•0•0•0•Updated Jul 24, 2024Jul 24, 2024
FEAS
Public
Python
•0•0•0•0•Updated Jul 9, 2024Jul 9, 2024
predCAN
Public
Ontology-based prediction of cancer driver genes
machine-learning driver-genes ontology embeddings
Python
•
BSD 2-Clause "Simplified" License
•4•5•0•2•Updated Jun 17, 2024Jun 17, 2024
pathophenodb
Public
Web application and additional content for PathoPhenoDB
Python
•0•8•2•5•Updated Jun 9, 2024Jun 9, 2024
KSA001
Public
Telomere-2-Telomere Genome from Saudi Arabia
genome-assembly reference-genome personal-genomics
Common Workflow Language
•
Other
•0•3•0•0•Updated Jun 2, 2024Jun 2, 2024
16SProcessing
Public
A Nextflow workflow to run vsearch for short read 16S data
Nextflow
•0•1•0•0•Updated May 29, 2024May 29, 2024
geometric_embeddings
Public
Python
•0•0•0•0•Updated May 15, 2024May 15, 2024
deepgoweb
Public
webapp gene-ontology
JavaScript
•1•1•0•12•Updated Apr 23, 2024Apr 23, 2024
deepgoplus
Public
DeepGO with GOPlus axioms
Python
•
BSD 3-Clause "New" or "Revised" License
•41•90•17•2•Updated Apr 23, 2024Apr 23, 2024
EmbedPVP
Public
EmbedPVP: Embedding-based Phenotype Variant Predictor
bioinformatics variant-analysis neuro-symbolic biomedical-ontologies prioritization-algorithm genomic-variants knowledge-enhanced-learning
Python
•
GNU General Public License v3.0
•0•3•0•0•Updated Apr 4, 2024Apr 4, 2024
LLM_GenePrioritization
Public
Python
•0•0•0•0•Updated Mar 28, 2024Mar 28, 2024
semrec2023
Public
Python
•0•0•0•0•Updated Mar 22, 2024Mar 22, 2024
Metagenomic-DeepFRI
Public
Pipeline for searching and aligning contact maps for proteins, then running DeepFri's GCN.
Python
•
BSD 3-Clause "New" or "Revised" License
•6•0•0•0•Updated Mar 13, 2024Mar 13, 2024
foldcomp
Public
Compressing protein structures effectively with torsion angles
C++
•
GNU General Public License v3.0
•14•0•0•0•Updated Feb 6, 2024Feb 6, 2024
t2t
Public
Python
•
BSD 3-Clause "New" or "Revised" License
•1•0•0•0•Updated Jan 22, 2024Jan 22, 2024