How does it handle large datasets?

The skill implements memory-efficient pagination using Python generators and includes built-in retry strategies for high-frequency API requests.

How do I authenticate with Benchling using this skill?

You can use either API Key Authentication for scripts or OAuth Client Credentials for applications, ensuring credentials are stored securely as environment variables.

Can I manage physical inventory like freezers and plates?

Yes, the skill supports creating and managing containers, boxes, locations, and performing bulk transfers between storage units.

Can I automate my Lab Notebook entries?

Yes, you can programmatically create entries, manage templates, and link registry entities or results directly to specific experiment logs.

Does this support biological sequence management?

Absolutely. It includes specific patterns for managing DNA, RNA, and AA sequences, including registration and schema field management.

Benchling R&D Integration

Name: Benchling R&D Integration
Author: Microck

byMicrock

•

Data Science & ML

Automates laboratory data management and R&D workflows by integrating with Benchling's registry, inventory, and electronic lab notebook systems.

About

This skill provides comprehensive capabilities for interacting with the Benchling life sciences R&D platform, allowing developers to programmatically manage biological sequences, lab inventory, and experimental documentation. It streamlines the automation of laboratory processes by offering pre-configured patterns for the Benchling Python SDK and REST API, covering everything from registry entity creation (DNA, RNA, proteins) to complex workflow task management and event-driven integrations. Whether you are syncing data with external systems or querying the Benchling Data Warehouse for analytics, this skill ensures best practices for authentication, pagination, and error handling are followed to maintain high-integrity laboratory data.

Key Features

Real-time event integration via AWS EventBridge and Data Warehouse SQL queries
Automated Electronic Lab Notebook (ELN) entry and template management
89 GitHub stars
Comprehensive Registry management for DNA, RNA, and protein sequences
Physical inventory tracking for samples, containers, and storage locations
Workflow automation for task assignment and status tracking

Use Cases

Automating inventory audits and sample transfers across storage locations
Syncing experimental results between Benchling and external analytics platforms
Bulk importing DNA sequences from FASTA files directly into the Benchling Registry

About

Key Features

Real-time event integration via AWS EventBridge and Data Warehouse SQL queries
Automated Electronic Lab Notebook (ELN) entry and template management
89 GitHub stars
Comprehensive Registry management for DNA, RNA, and protein sequences
Physical inventory tracking for samples, containers, and storage locations
Workflow automation for task assignment and status tracking

Use Cases

Automating inventory audits and sample transfers across storage locations
Syncing experimental results between Benchling and external analytics platforms
Bulk importing DNA sequences from FASTA files directly into the Benchling Registry