Omics-OS Cloud

Omics-OS Cloud is a managed bioinformatics platform at app.omics-os.com that lets you analyze multi-omics data through natural conversation with Lobster AI.

What You Can Do

Talk to Lobster in plain English and it will:

• Search literature — Find papers on PubMed, extract methods, discover datasets across GEO, SRA, and PRIDE
• Analyze single-cell data — QC, clustering, differential expression, cell type annotation with Scanpy and scVI
• Process bulk RNA-seq — Normalization, batch correction, pathway analysis with pyDESeq2
• Explore proteomics — Parse DDA/DIA mass spec data (MaxQuant, DIA-NN, Spectronaut, Olink), imputation, enrichment
• Run genomics workflows — VCF parsing, GWAS analysis, variant annotation
• Perform machine learning — Feature selection, survival analysis, biomarker discovery, multi-omics integration
• Visualize results — Publication-quality UMAP, heatmaps, volcano plots, violin plots via Plotly

How It Works

1. You ask — Describe your analysis in natural language
2. Lobster delegates — The supervisor routes your request to specialist agents
3. Agents execute — Domain experts run validated bioinformatics tools on your data
4. Results stream — See results, plots, and insights in real-time via SSE

You: Find scRNA datasets on senescence in human fibroblasts,
     download top 3, run QC, cluster cells, identify cell types

[Supervisor -> Research Agent]
Searching GEO for scRNA-seq datasets on senescence...
Found 5 matching datasets.

[Supervisor -> Data Expert]
Downloading GSE167829, GSE182118, GSE201910...
Converting to H5AD format.

[Supervisor -> Transcriptomics Expert]
Running QC: 24,531 cells pass filters.
Clustering: 8 distinct populations identified.
Cell types annotated: Fibroblasts, Immune, Endothelial.

[Supervisor -> Visualization Expert]
Generating UMAP plot and marker gene heatmap.

Done in 12 minutes. Jupyter notebook exported.

Modular Agent System

Omics-OS Cloud runs on Lobster AI v1.0.0 — a modular multi-agent architecture with 13 specialist agents organized into 8 installable packages.

Supervisor-Accessible Agents (9)

Sub-Agents (4)

These agents are not directly accessible — they are delegated to by their parent agents for specialized tasks:

Architecture

Omics-OS Cloud runs on AWS with four independent CDK stacks:

Streaming: HTTP SSE with DataStreamResponse protocol (not WebSocket). Real-time agent output as it executes.

LLM: Google Gemini 3 Pro (production default). BYOK (Bring Your Own Key) supported for OpenAI, Anthropic, and other providers.

Provenance: Every analysis step is logged with W3C-PROV compliant audit trails, exportable as Jupyter notebooks.

Get Started

Pricing

View pricing details →

For Developers

Omics-OS Cloud exposes a REST API for programmatic access:

• Streaming chat: POST /sessions/\{id\}/chat/stream (SSE with DataStreamResponse format)
• Session management: GET/POST/DELETE /sessions
• File upload: POST /files/upload (H5AD, CSV, VCF, 10X formats)
• Modalities: GET /modalities (list loaded datasets)
• Plots: GET /plots (retrieve generated visualizations)

All endpoints require JWT authentication via AWS Cognito.

View API reference →