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ginkgo-cloud-lab

ginkgo-cloud-lab

github.com/leonchaoxOther99070 installsUpdated 15w ago
Repository

About ginkgo-cloud-lab

A skill for using Ginkgo Cloud Lab to run experiments remotely through Ginkgo Bioworks' automated lab infrastructure. It covers protein expression testing and optimization, fluorescent pixel art, and EstiMate assessments for custom protocols.

Key features

  1. 01Submit protocols remotely
  2. 02Screen cell-free protein expression
  3. 03Optimize protein expression conditions
  4. 04Turn pixel art into fluorescent bacterial images
  5. 05Assess custom protocols with EstiMate

Use cases

  1. 01Confirm protein expression and review baseline titer
  2. 02Screen conditions for difficult-to-express or membrane proteins
  3. 03Create fluorescent bacterial pixel art
  4. 04Get feasibility and pricing for unlisted protocols

Install

Copy the command and run it in a terminal.

$npx skills add https://github.com/leonchaox/qinyan-academic-skills --skill ginkgo-cloud-lab

After installing, type/ginkgo-cloud-labin Claude Code to confirm it loaded.

Bundled files

References and scripts installed along with SKILL.md.

references/
cell-free-protein-expression-optimization.md
cell-free-protein-expression-validation.md
fluorescent-pixel-art-generation.md

Details

From the project README

Ginkgo Cloud Lab

Overview

Ginkgo Cloud Lab (https://cloud.ginkgo.bio) provides remote access to Ginkgo Bioworks' autonomous lab infrastructure. Protocols are executed on Reconfigurable Automation Carts (RACs) -- modular units with robotic arms, maglev sample transport, and industrial-grade software spanning 70+ instruments.

The platform also includes EstiMate, an AI agent that accepts human-language protocol descriptions and returns feasibility assessments and pricing for custom workflows beyond the listed protocols.

Available Protocols

1. Cell Free Protein Expression Validation

Rapid go/no-go expression screening using reconstituted E. coli CFPS. Submit a FASTA sequence (up to 1800 bp) and receive expression confirmation, baseline titer (mg/L), and initial purity with virtual gel images.

2. Cell Free Protein Expression Optimization

DoE-based optimization across up to 24 conditions per protein (lysates, temperatures, chaperones, disulfide enhancers, cofactors). Designed for difficult-to-express and membrane proteins.

3. Fluorescent Pixel Art Generation

Transform a pixel art image (48x48 to 96x96 px, PNG/SVG) into fluorescent bacterial artwork using up to 11 E. coli strains via acoustic dispensing. Delivered as high-res UV photographs.

General Ordering Workflow

  1. Select a protocol at https://cloud.ginkgo.bio/protocols
  2. Configure parameters (number of samples/proteins, replicates, plates)
  3. Upload input files (FASTA for protein protocols, PNG/SVG for pixel art)
  4. Add any special requirements in the Additional Details field
  5. Submit and receive a feasibility report and price quote

For protocols not listed above, use the EstiMate chat to describe a custom protocol in plain language and receive compatibility assessment and pricing.

Authentication

Access Ginkgo Cloud Lab at https://cloud.ginkgo.bio. Account creation or institutional access may be required. Contact Ginkgo at [email protected] for access questions.

Key Infrastructure

  • RACs (Reconfigurable Automation Carts): Modular robotic units with high-precision arms and maglev transport
  • Catalyst Software: Protocol orchestration, scheduling, parameterization, and real-time monitoring
  • 70+ integrated instruments: Sample prep, liquid handling, analytical readouts, storage, incubation
  • Nebula: Ginkgo's autonomous lab facility in Boston, MA

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