39 Open source projects that are alternatives of or similar to bio2bel

📖 Generation and Applications of Knowledge Graphs in Systems and Networks Biology

The Common Core Ontology Repository holds the current released version of the Common Core Ontology suite.

information artifact ontology

phenol: Phenotype ontology library

NetworkX-based Python library for representing ontologies

Building data processing pipelines for documents processing with NLP using Apache NiFi and related services

Teaching material relevant to KGs

Powerful RDF Knowledge Graph Generation with [R2]RML Mappings

Translator of spreadsheet mappings into R2RML, RML or YARRRML

This repository contains the dataset and the source code for the classification of food categories from meal images.

A bioinformatics API and web-app to integrate multi-omics datasets & interface with public databases.

Template to deploy a Data Product for data stream processing into a Data Landing Zone of the Data Management & Analytics Scenario (former Enterprise-Scale Analytics). The Data Product template can be used by cross-functional teams to ingest, provide and create new data assets within the platform.

Natural language processing in examples and games

WInte.r is a Java framework for end-to-end data integration. The WInte.r framework implements well-known methods for data pre-processing, schema matching, identity resolution, data fusion, and result evaluation.

COSMOS (Causal Oriented Search of Multi-Omic Space) is a method that integrates phosphoproteomics, transcriptomics, and metabolomics data sets.

Tributech Catalog - Create and manage your DTDL models using our graphical interface and store them using our APIs.

Framework and command-line tools for integrating FollowTheMoney data streams from multiple sources

Some of the projects i made when starting to learn R for Data Science at the university

Privacy and Security focused Segment-alternative, in Golang and React

Airbyte is an open-source EL(T) platform that helps you replicate your data in your warehouses, lakes and databases.

Upserts, Deletes And Incremental Processing on Big Data.

Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.

A lightweight opinionated ETL framework, halfway between plain scripts and Apache Airflow

Reference mapping for single-cell genomics

Template to deploy a Data Product for Batch data processing into a Data Landing Zone of the Data Management & Analytics Scenario (former Enterprise-Scale Analytics). The Data Product template can be used by cross-functional teams to ingest, provide and create new data assets within the platform.

Installer for Thymeflow, a personal knowledge management system.

Kuwala is the no-code data platform for BI analysts and engineers enabling you to build powerful analytics workflows. We are set out to bring state-of-the-art data engineering tools you love, such as Airbyte, dbt, or Great Expectations together in one intuitive interface built with React Flow. In addition we provide third-party data into data sc…

An Efficient RML-Compliant Engine for Knowledge Graph Construction

Configurable data bridge for permanent ETL jobs

Population Assignment using Genetic, Non-genetic or Integrated Data in a Machine-learning Framework. Methods in Ecology and Evolution. 2018;9:439–446.

A .NET class library that allows you to import data from different sources into a unified destination

CellO: Gene expression-based hierarchical cell type classification using the Cell Ontology

PheKnowLator: Heterogeneous Biomedical Knowledge Graphs and Benchmarks Constructed Under Alternative Semantic Models

API for linked biological knowledge

Automatic tagging and analysis of documents in an Apache Solr index for faceted search by RDF(S) Ontologies & SKOS thesauri

RO is an ontology of relations for use with biological ontologies

Work in progress to design data models for UK Parliament

📛 A Python package for using ontologies, terminologies, and biomedical nomenclatures

🌶️ An ecosystem in Python for working with the Biological Expression Language (BEL)