Single Cell Omics Data Analysis

The industry validated analytics platform with dedicated single‑cell bioinformaticians to accelerate your discovery while guaranteeing transparency and reproducibility.

Spend less time wrestling with data and more time making discoveries.

WHY NYGEN?
Platform + People

Nygens cloud‑native analytics platforms pairs with a bioinformatics team that has analysed thousands of datasets.

Purpose‑Built for Single‑Cell Omics

Optimised for scRNA‑seq, extensible to multi‑omics.

Time‑Bound Delivery

4-8 week pre-defined milestones keep projects on track and budgets predictable.

Milestone‑based Pricing

Science isn’t done by the hour; pay when each milestone is delivered aligning our incentives with your research progress.

Typical Project Timeline

Fast and flexible milestone‑based delivery

Week 0

Kick‑off & Data On‑Boarding

Project plan and experiment briefings; secure data transfer and pipeline scaffold.

Week 1

QC & Integration

Quality control (ambient RNA removal, doublet detection), batch correction, parameter tuning; interim progress review.

Week 2-4

Clustering & Annotation

KNN graph construction, PCA/UMAP/t‑SNE embedding; unsupervised clustering, marker gene identification; sub‑population analysis.

Week 5-6

Biological Interpretation

Differential expression & pseudobulk analysis; GO/GSEA pathway enrichment; pseudotime trajectory inference.

Week 6-7

Publication Package & Handoff

Publication‑ready figures and tables; statistical validation; reproducible pipeline; hand‑off workshop.

Our Core Services

Rapid, Reproducible Single‑Cell Bioinformatics Services

Secondary data analysis of scRNA‑seq (Integration, clustering, annotation, statistical analysis)

Biological interpretation & hypothesis generation (differential expression, pathway, ligand‑receptor, trajectory)

Data integration across platforms (CITE‑seq, spatial, public atlases)

Custom workflows for novel chemistry or bespoke endpoints

Flexible Service Models
to Match Your Needs

Self‑Service Analysis

Use Nygen Analytics directly to QC, explore and visualise your own data with point‑and‑click workflows.

Guided Analysis

Collaborate with our bioinformaticians; we coach you while you stay hands‑on in the platform.

Full‑Service Bioinformatics

Nygen’s experts run the entire pipeline from raw FASTQ to publication‑ready figures delivering annotated workspaces and reports.

Outcomes You Can Expect

Peer‑reviewable figures, tables, and methods
Interactive Nygen Analytics workspace for further self‑exploration
Fully reproducible pipeline enabling re‑run or extension at any time

Data Security & Compliance

ISO‑27001 aligned policies, GDPR‑compliant processing, and optional EU or US data residency. Our download‑free analysis keeps sensitive data in place.

Ready to Transform Your Single‑Cell Data into Decisions?