VIDA-NYU / bdi-kit
A Python toolkit for biomedical data integration and harmonization
☆10Updated this week
Alternatives and similar repositories for bdi-kit
Users that are interested in bdi-kit are comparing it to the libraries listed below
Sorting:
- Interactive & explainable GNN for drug repurposing☆12Updated last year
- A Jupyter widget for comparing two embeddings with shared labels by their confusion, neighborhoods, and size.☆44Updated 6 months ago
- Template for creating a BioCypher-driven knowledge graph☆12Updated 5 months ago
- 🍇 Embiggen is the Python Graph Representation learning, Prediction and Evaluation submodule of the GRAPE library.☆42Updated last year
- 🎡 Unified access to OLS instances like from the EBI and TIB☆12Updated last year
- jinja2-enabled jupyter notebooks☆37Updated 3 weeks ago
- PlaNet: Predicting population response to drugs via clinical knowledge graph☆29Updated 2 months ago
- Grounding of biomedical named entities with contextual disambiguation☆44Updated last week
- Software repo for Team Expander Agent (Oregon State U., Institute for Systems Biology, and Penn State U.)☆34Updated this week
- 🪝 What's the latest version for each database?☆27Updated this week
- Namespace encoding hierarchical relationships between proteins, protein families, and protein complexes.☆12Updated 4 years ago
- Modelling human health trajectories using generative transformers☆27Updated this week
- A Database-based knowledge back-end built on and for INDRA. The INDRA Database is a service that can be set up by any user with their own…☆17Updated 3 weeks ago
- The public repository for the Proteomic Data Commons UI and APIs☆14Updated 11 months ago
- R package for delineating temporal dataset shifts in Eletronic Health Records☆17Updated last year
- ClinVec: Unified Embeddings of Clinical Codes Enable Knowledge-Grounded AI in Medicine☆57Updated last week
- A Python Library for Evaluating the Reliability of Dimensionality Reduction Embeddings☆36Updated 7 months ago
- Data structures and code to read/write BioC XML and Json.☆32Updated last year
- Map your disease and phenotype terms to the Open Targets platform ontology☆21Updated 5 months ago
- Target prioritization using network representation learning☆11Updated 3 years ago
- A Python framework for integrating biological databases and structured data sources in Biological Expression Language (BEL)☆21Updated 3 years ago
- ☆24Updated 4 years ago
- Draft cell type definitions from data - candidates for inclusion in CL☆12Updated 4 months ago
- SHEPHERD: Few shot learning for phenotype-driven diagnosis of patients with rare genetic diseases☆54Updated 8 months ago
- a tool for mapping free-text descriptions of entities to ontology terms☆20Updated 9 months ago
- a module to calculate the MeSH similarity☆25Updated 3 years ago
- Ensemble Integration: a customizable pipeline for generating multi-modal, heterogeneous ensembles☆20Updated 6 months ago
- Converting irregularly spaced time series, such as eletronic health records, into dataframes for tabular classification.☆19Updated last month
- NetworkX-based Python library for representing ontologies☆90Updated last year
- Similarity search in heterogeneous knowledge graphs using meta paths.☆26Updated 2 years ago