adaptyv

name	adaptyv
author	K-Dense, Inc.
description	How to use the Adaptyv Bio Foundry API and Python SDK for protein experiment design, submission, and results retrieval. Use this skill whenever the user mentions Adaptyv, Foundry API, protein binding assays, protein screening experiments, BLI/SPR assays, thermostability assays, or wants to submit protein sequences for experimental characterization. Also trigger when code imports `adaptyv`, `adaptyv_sdk`, or `FoundryClient`, or references `foundry-api-public.adaptyvbio.com`.
tags	["scientific-skills","adaptyv","python","api","experimental-design","search","citation-management","experimentation"]

|---|---| | affinity | bli or spr | KD, kon, koff kinetics | Yes | | screening | bli or spr | Yes/no binding | Yes | | thermostability | — | Melting temperature (Tm) | No | | expression | — | Expression yield | No | | fluorescence | — | Fluorescence intensity | No |

Experiment Lifecycle

Draft → WaitingForConfirmation → QuoteSent → WaitingForMaterials → InQueue → InProduction → DataAnalysis → InReview → Done

Status	Who Acts	Description
Draft	You	Editable, no cost commitment
WaitingForConfirmation	Adaptyv	Under review, quote being prepared
QuoteSent	You	Review and confirm the quote
WaitingForMaterials	Adaptyv	Gene fragments and target ordered
InQueue	Adaptyv	Materials arrived, queued for lab
InProduction	Adaptyv	Assay running
DataAnalysis	Adaptyv	Raw data processing and QC
InReview	Adaptyv	Final validation
Done	You	Results available
Canceled	Either	Experiment canceled

The results_status field on an experiment tracks: none, partial, or all.

Common Workflows

1. Submit a Binding Screen (Step by Step)

# 1. Find a target
targets = client.targets.list(search="EGFR", selfservice_only=True)
target_id = targets.items[0].id

# 2. Preview cost
estimate = client.experiments.cost_estimate({
    "experiment_spec": {
        "experiment_type": "screening",
        "method": "bli",
        "target_id": target_id,
        "sequences": {"seq1": "EVQLVESGGGLVQ...", "seq2": "MKVLVAG..."},
        "n_replicates": 3
    }
})

# 3. Create experiment (starts as Draft)
exp = client.experiments.create({
    "name": "EGFR binder screen batch 1",
    "experiment_spec": {
        "experiment_type": "screening",
        "method": "bli",
        "target_id": target_id,
        "sequences": {"seq1": "EVQLVESGGGLVQ...", "seq2": "MKVLVAG..."},
        "n_replicates": 3
    }
})

# 4. Submit for review
client.experiments.submit(exp.experiment_id)

# 5. Poll or use webhooks until Done
# 6. Retrieve results
results = client.experiments.get_results(exp.experiment_id)

2. Automated Pipeline (Skip Draft + Auto-Accept Quote)

exp = client.experiments.create({
    "name": "Auto pipeline run",
    "experiment_spec": {...},
    "skip_draft": True,
    "auto_accept_quote": True,
    "webhook_url": "https://my-server.com/webhook"
})
# Webhook fires on each status transition; poll or wait for Done

3. Using Webhooks

Pass webhook_url when creating an experiment. Adaptyv POSTs to that URL on every status transition with the experiment ID, previous status, and new status.

Sequences

• Simple format: {"seq1": "EVQLVESGGGLVQPGGSLRLSCAAS"}
• Rich format: {"seq1": {"aa_string": "EVQLVESGGGLVQ...", "control": false, "metadata": {"type": "scfv"}}}
• Multi-chain: use colon separator — "MVLS:EVQL"
• Valid amino acids: A, C, D, E, F, G, H, I, K, L, M, N, P, Q, R, S, T, V, W, Y (case-insensitive, stored uppercase)
• Sequences can only be added to experiments in Draft status

Filtering, Sorting, and Pagination

All list endpoints support pagination (limit 1-100, default 50; offset), search (free-text on name fields), and sorting.

Filtering uses s-expression syntax via the filter query parameter:

• Comparison: eq(field,value), neq, gt, gte, lt, lte, contains(field,substring)
• Range/set: between(field,lo,hi), in(field,v1,v2,...)
• Logic: and(expr1,expr2,...), or(...), not(expr)
• Null: is_null(field), is_not_null(field)
• JSONB: at(field,key) — e.g., eq(at(metadata,score),42)
• Cast: float(), int(), text(), timestamp(), date()

Sorting uses asc(field) or desc(field), comma-separated (max 8):

sort=desc(created_at),asc(name)

Example: filter=and(gte(created_at,2026-01-01),eq(status,done))

Error Handling

All errors return:

{
  "error": "Human-readable description",
  "request_id": "req_019462a4-b1c2-7def-8901-23456789abcd"
}

The request_id is also in the x-request-id response header — include it when contacting support.

Token Management

Tokens use Biscuit-based cryptographic attenuation. You can create restricted tokens scoped by organization, resource type, actions (read/create/update), and expiry via POST /tokens/attenuate. Revoking a token (POST /tokens/revoke) revokes it and all its descendants.

Detailed API Reference

For the full list of all 32 endpoints with request/response schemas, read references/api-endpoints.md.