tablassert

Tablassert turns biomedical spreadsheets (Excel, CSV, TSV) into knowledge graphs ready for NCATS Translator. Declare how your columns map to subject–predicate–object statements in YAML; Tablassert resolves free text to standard CURIEs, attaches provenance and statistical annotations, and emits KGX-compliant nodes and edges.

Drug Approvals Knowledge Provider: one reproducible pipeline that turns DailyMed, Drugs@FDA, FAERS, Health Canada's Canada Vigilance database, and the EMA medicines registry and product-information (SmPC) corpus into Translator assertion tables, ready for Tablassert KGX modeling.

A Configurable Agentic Platform (With Hugging Face Transformers And Langchain) To Draft Semantically Tablassert TableConfigs From Natural Language Inputs.

ISB multiomics knowledge-graph monorepo: Dagster DAG code locations building KGX ndjson graphs (DAKP drug approvals), Linkouts (KGX-driven Phoenix LiveView edge pages + Starlight docs), shared Python libs, Go workers, Nx task graph, and Nix devshells.

MicrobiomeKG Visualization Tool. MBKGVisual reads compressed graph data (NODES and EDGES TSV files), builds a NetworkX graph, samples it using degree-based neighbor expansion (0.1% of nodes), and generates an interactive HTML visualization using Pyvis.

Improved DuckDB Export Of The NCATS Translator BABEL Project With Enhanced Indexing and NLP Capabilities. Dbssert Is Intended To Be Used With The Tablassert Knowledge Graph Backend's Fullmap Feature.

A ConfigMigration microservice for the new cloud native Tablassert ecosystem. Update knowlegde graph configuration to the latest syntax with these APIs.

Here are the configs for MultiomicsKG. Feel free to add or edit any of these as you see fit. There's a config checker and guidelines here too.

The TableConfig microservice for the new distributed, cloud-native Tablassert knowledge extractor. TableConfigs declare instructions that Tablassert uses to extract knowledge assertions from tabular data.

Migrate Tablassert configuration YAML files from v4.4.0 schema to TC3 schema.

QualifiersMCP is an MCP server for authoring and validating Tablassert table configuration files with Biolink qualifiers. It provides tools to fetch qualifier documentation, convert YAML/JSON table configurations, validate configuration syntax against Tablassert models, and call local helper services for PMC extraction and CURIE lookup workflows.