adaptyv
npx machina-cli add skill Microck/ordinary-claude-skills/adaptyv --openclawAdaptyv
Adaptyv is a cloud laboratory platform that provides automated protein testing and validation services. Submit protein sequences via API or web interface and receive experimental results in approximately 21 days.
Quick Start
Authentication Setup
Adaptyv requires API authentication. Set up your credentials:
- Contact support@adaptyvbio.com to request API access (platform is in alpha/beta)
- Receive your API access token
- Set environment variable:
export ADAPTYV_API_KEY="your_api_key_here"
Or create a .env file:
ADAPTYV_API_KEY=your_api_key_here
Installation
Install the required package using uv:
uv pip install requests python-dotenv
Basic Usage
Submit protein sequences for testing:
import os
import requests
from dotenv import load_dotenv
load_dotenv()
api_key = os.getenv("ADAPTYV_API_KEY")
base_url = "https://kq5jp7qj7wdqklhsxmovkzn4l40obksv.lambda-url.eu-central-1.on.aws"
headers = {
"Authorization": f"Bearer {api_key}",
"Content-Type": "application/json"
}
# Submit experiment
response = requests.post(
f"{base_url}/experiments",
headers=headers,
json={
"sequences": ">protein1\nMKVLWALLGLLGAA...",
"experiment_type": "binding",
"webhook_url": "https://your-webhook.com/callback"
}
)
experiment_id = response.json()["experiment_id"]
Available Experiment Types
Adaptyv supports multiple assay types:
- Binding assays - Test protein-target interactions using biolayer interferometry
- Expression testing - Measure protein expression levels
- Thermostability - Characterize protein thermal stability
- Enzyme activity - Assess enzymatic function
See reference/experiments.md for detailed information on each experiment type and workflows.
Protein Sequence Optimization
Before submitting sequences, optimize them for better expression and stability:
Common issues to address:
- Unpaired cysteines that create unwanted disulfides
- Excessive hydrophobic regions causing aggregation
- Poor solubility predictions
Recommended tools:
- NetSolP / SoluProt - Initial solubility filtering
- SolubleMPNN - Sequence redesign for improved solubility
- ESM - Sequence likelihood scoring
- ipTM - Interface stability assessment
- pSAE - Hydrophobic exposure quantification
See reference/protein_optimization.md for detailed optimization workflows and tool usage.
API Reference
For complete API documentation including all endpoints, request/response formats, and authentication details, see reference/api_reference.md.
Examples
For concrete code examples covering common use cases (experiment submission, status tracking, result retrieval, batch processing), see reference/examples.md.
Important Notes
- Platform is currently in alpha/beta phase with features subject to change
- Not all platform features are available via API yet
- Results typically delivered in ~21 days
- Contact support@adaptyvbio.com for access requests or questions
- Suitable for high-throughput AI-driven protein design workflows
Source
git clone https://github.com/Microck/ordinary-claude-skills/blob/main/skills_all/claude-scientific-skills/scientific-skills/adaptyv/SKILL.mdView on GitHub Overview
Adaptyv is a cloud-based platform offering automated protein testing and validation. You can submit protein sequences via API or the web interface and receive experimental results in roughly 21 days, covering binding assays, expression, thermostability, enzyme activity, and sequence optimization workflows.
How This Skill Works
Submit sequences and select an experiment type through API or UI; the platform runs wet-lab validated assays and returns results after about 21 days. Before submission, optimize sequences using tools like NetSolP, SoluProt, SolubleMPNN, and ESM to improve expression and stability, then manage the design workflow and results via API endpoints.
When to Use It
- When designing proteins and needing experimental validation for binding, expression, thermostability, or enzyme activity.
- When optimizing protein sequences for better expression and stability using NetSolP, SoluProt, SolubleMPNN, and ESM.
- When submitting experiments via API, tracking their status, and downloading results.
- When managing protein design workflows that require wet-lab validation throughout the process.
- When running high-throughput AI-driven protein design workflows that need rapid experimental feedback.
Quick Start
- Step 1: Obtain API access by contacting support@adaptyvbio.com and set your ADAPTYV_API_KEY environment variable.
- Step 2: Install required libraries (e.g., requests, python-dotenv) and configure your base URL.
- Step 3: Submit an experiment payload (sequences, experiment_type, optional webhook) to /experiments and monitor the returned experiment_id.
Best Practices
- Authenticate via API key and keep credentials secure; follow the alpha/beta access notes.
- Prepare clear, well-formatted sequences (e.g., FASTA) and specify the intended experiment type.
- Use pre-submission sequence optimization with NetSolP, SoluProt, SolubleMPNN, and ESM to improve solubility and expression likelihood.
- Leverage batch submissions and track experiment status to optimize throughput and resource planning.
- Consult reference docs (e.g., reference/experiments.md and reference/api_reference.md) for detailed workflows and endpoints.
Example Use Cases
- Submit a binding assay to validate a novel protein-target interaction using biolayer interferometry.
- Run expression testing to identify soluble constructs and expression levels across variants.
- Characterize thermostability to select variants with improved thermal stability.
- Perform enzyme activity assays to quantify catalytic performance of redesigned enzymes.
- Coordinate an end-to-end protein design workflow with iterative wet-lab validation and result retrieval.
