berdl

What problem does it solve?

This Skill provides programmatic access to the KBase BER Data Lakehouse (BERDL), enabling users to query vast microbial genomic and biochemical datasets that would otherwise be inaccessible.

Core Features & Use Cases

• Query BERDL Databases: Access and query specific databases within BERDL, such as pangenome data, biochemistry models, and fitness data.
• Data Exploration: Retrieve genome statistics, analyze gene clusters, access functional annotations, and query biochemical reaction data.
• Use Case: A researcher wants to find all genes associated with a specific metabolic pathway (e.g., glycolysis) across all Escherichia coli strains in the pangenome database and then retrieve the thermodynamic properties of the reactions involved from the biochemistry database.

Quick Start

Use the berdl skill to list all available databases.