# One Codex

**Canonical:** https://apis.io/providers/one-codex/  
**Website:** https://www.onecodex.com/  
**APIs profiled:** 25

One Codex is a microbial genomics data platform for fast, reproducible microbiome sequencing and analysis. Its cloud platform pairs the "world's largest microbial reference database" with automated shotgun and amplicon pipelines, sample management, and collaboration for academic institutions, biotech companies, and clinical laboratories. Beyond the web application, One Codex exposes a RESTful JSON API (self-described with JSON Schema) covering samples, analyses, classifications, panels, alignments, MLST, functional profiles, jobs/workflows, projects, metadata, tags, documents, sequencing batches, events, and webhooks — plus an official `onecodex` Python client and CLI. The company also offers a Genome Library and end-to-end microbiome sequencing services. One Codex is a portfolio company of DCVC.

## Kin Score — 53.3 / 100 (developing)

Scored 2026-08-17 under rubric 0.11.0. Trend: flat (+0.0 from 53.3).

| Facet | Score |
|---|---|
| Discoverability | 81.5 |
| Contract Quality | 62.0 |
| Governance | 20.8 |
| Operational Transparency | 39.5 |
| Developer Ergonomics | 64.7 |
| Commercial Clarity | 52.6 |

Regulatory layer — **Health**: 45.0 (matched via tags).

## Agent readiness — 43.5 (agent-ready)

| Dimension | Value |
|---|---|
| Spec Presence | yes |
| Agentic Access | derived |
| MCP Server | derived |
| Auth Clarity | yes |
| Idempotency | no |
| Error Semantics | documented |
| OpenAPI Examples | partial |
| Rate Limit Signal | no |
| Event Surface Described | yes |
| Agent Skills | derived |
| Well Known Catalog | no |
| Consent Identity | no |
| Agent Card | no |
| Dry Run Mode | no |

## Access

Self-serve signup — onboarding: self-serve, pricing: unknown, trial: no (confidence: medium).

## APIs (25)

- **One Codex Account API** — The Account API from One Codex — 1 operation(s) for account.
- **One Codex Alignments API** — The Alignments API from One Codex — 9 operation(s) for alignments.
- **One Codex Analyses API** — The Analyses API from One Codex — 9 operation(s) for analyses.
- **One Codex Annotation Sets API** — The Annotation Sets API from One Codex — 4 operation(s) for annotation sets.
- **One Codex Assemblies API** — The Assemblies API from One Codex — 3 operation(s) for assemblies.
- **One Codex Assets API** — The Assets API from One Codex — 5 operation(s) for assets.
- **One Codex Classifications API** — The Classifications API from One Codex — 11 operation(s) for classifications.
- **One Codex Controls API** — The Controls API from One Codex — 9 operation(s) for controls.
- **One Codex Documents API** — The Documents API from One Codex — 9 operation(s) for documents.
- **One Codex Events API** — The Events API from One Codex — 2 operation(s) for events.
- **One Codex Functional Profiles API** — The Functional Profiles API from One Codex — 10 operation(s) for functional profiles.
- **One Codex Genomes API** — The Genomes API from One Codex — 2 operation(s) for genomes.
- **One Codex Jobs API** — The Jobs API from One Codex — 4 operation(s) for jobs.
- **One Codex Metadata API** — The Metadata API from One Codex — 2 operation(s) for metadata.
- **One Codex Mlsts API** — The Mlsts API from One Codex — 9 operation(s) for mlsts.
- **One Codex Panels API** — The Panels API from One Codex — 9 operation(s) for panels.
- **One Codex Projects API** — The Projects API from One Codex — 7 operation(s) for projects.
- **One Codex Reports API** — The Reports API from One Codex — 9 operation(s) for reports.
- **One Codex Samples API** — The Samples API from One Codex — 11 operation(s) for samples.
- **One Codex Sequencing API** — The Sequencing API from One Codex — 4 operation(s) for sequencing.
- **One Codex Tags API** — The Tags API from One Codex — 2 operation(s) for tags.
- **One Codex Taxa API** — The Taxa API from One Codex — 5 operation(s) for taxa.
- **One Codex Users API** — The Users API from One Codex — 2 operation(s) for users.
- **One Codex Webhooks API** — The Webhooks API from One Codex — 2 operation(s) for webhooks.
- **One Codex Workflows API** — The Workflows API from One Codex — 9 operation(s) for workflows.

## MCP servers (1)

- **one-codex-mcp.yml**

## Agentic access (1)

- **One Codex Agentic Access** — 170 operations · 64 acting · 3 human-in-the-loop

## Security (3)

- **One Codex Authentication** — apiKey · 1 scheme
- **One Codex Domain Security** — TLSv1.3 · HSTS · DMARC
- **One Codex Vulnerability Disclosure** — Hackerone · contact published

## Tags

Company, Genomics, Microbiome, Bioinformatics, Metagenomics, Life Sciences, Sequencing, Healthcare, Data Platform, API

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Profiled by [API Evangelist](https://apievangelist.com) and published on [APIs.io](https://apis.io/providers/one-codex/). Scores are computed from the provider's own public artifacts under a published rubric.