NGS Data Analysis Raw Reads → Results, Publication-Ready.
Upload your FASTQ, BAM, or VCF files. Get QC, alignment, quantification, differential expression, variant calling, pathway analysis, and publication-ready figures.
In 3–7 days
Starting
Time
Supported
Review
Your Data Through Our Pipeline
Every sample goes through a validated, reproducible bioinformatics workflow — the same tools used by top-tier research institutions.
Upload
FASTQ · BAM · VCF · CRAM via SFTP or cloud link
QC
FastQC · MultiQC · adapter trimming · quality filtering
Alignment
BWA-MEM2 · STAR · HISAT2 · Minimap2 · Bowtie2
Quantification
featureCounts · Salmon · RSEM · GATK HaplotypeCaller
Analysis
DE · pathway · GO · clustering · variant annotation
Deliver
Report · figures · methods · raw files · reproducible code
Every NGS Assay. One Team.
Whatever your sequencer produced — Illumina, BGI, ONT, PacBio — we analyze it Click any assay for full details.
Bulk RNA-Seq Analysis
$150–300/sampleDifferential gene expression, pathway enrichment (KEGG, GO, Reactome), gene set enrichment analysis (GSEA), heatmaps, volcano plots, PCA. Supports any reference organism.
WGS / WES Variant Analysis
$200–500/sampleGermline or somatic variant calling, annotation (ClinVar, gnomAD, dbSNP, COSMIC), filtering, ACMG pathogenicity classification , copy number variation, structural variants. Human, mouse, or any reference genome.
Single-Cell RNA-Seq
$400–800/sample10x Genomics, Drop-Seq, Smart-Seq2. Cell-type clustering, marker gene identification, trajectory analysis, cell-cell communication, integration across samples/conditions.
Metagenomics (16S / Shotgun)
$150–250/sample16S rRNA amplicon or whole-genome shotgun sequencing. Taxonomic profiling, alpha/beta diversity, differential abundance, functional prediction (PICRUSt2, HUMAnN3). Gut, soil, water, clinical — any microbiome.
ChIP-Seq / CUT&RUN
$200–400/samplePeak calling, motif analysis, differential binding, annotation of peaks to nearest genes, signal heatmaps, genome browser tracks. Histone marks and transcription factors.
ATAC-Seq
$200–400/sampleOpen chromatin profiling. Peak calling, nucleosome-free region identification, TF footprinting, differential accessibility between conditions, integration with RNA-Seq.
Multi-Omics Integration
Combine RNA-Seq + ATAC-Seq + ChIP-Seq + WGS for a complete picture. We integrate across data modalities with statistical rigor — from joint NMF to MOFA+ to custom correlation frameworks.
Starting at $5,000 per project.
Transparent Per-Sample Pricing
All prices in USD. Volume discounts for 20+ samples. Custom quotes for complex or multi-phase projects.
| Assay Type | Per Sample | 10+ Samples | 50+ Samples | TAT | Input |
|---|---|---|---|---|---|
| Bulk RNA-Seq | $200 | $170 | $150 | 3-5 days | FASTQ (PE/SE) |
| WES (Exome) | $250 | $220 | $200 | 3-5 days | FASTQ / BAM |
| WGS (30x) | $400 | $350 | $300 | 5-7 days | FASTQ / CRAM |
| scRNA-Seq (10x) | $600 | $500 | $400 | 7-10 days | FASTQ / CellRanger |
| 16S Metagenomics | $150 | $130 | $110 | 3-5 days | FASTQ (PE) |
| Shotgun Metagenomics | $250 | $220 | $190 | 5-7 days | FASTQ (PE) |
| ChIP-Seq / CUT&RUN | $300 | $260 | $220 | 5-7 days | FASTQ (PE) |
| ATAC-Seq | $300 | $260 | $220 | 5-7 days | FASTQ (PE) |
What's Included
QC, alignment, primary + secondary analysis, publication-ready figures, methods section, raw analysis files, one round of revision. All tools and compute costs included.
Add-Ons
Rush delivery (48hr): +50%. Additional comparisons: $200 each. Custom visualization: $300–$800. Manuscript figure polishing: $500. GSEA deep-dive: $400.
Volume & Retainer
100+ samples: custom quote. Monthly retainer (10 samples/mo): 25% off list. Annual contracts: 30% off + priority queue. Academic pricing available.
Any Sequencer. Any Format.
We're platform-agnostic. Whether your data comes from Illumina NovaSeq, BGI DNBSEQ, Oxford Nanopore, PacBio, or Ion Torrent — we handle it. Upload via SFTP, S3, Google Drive, or any cloud link.
Input Formats
Output Formats
NovaSeq · HiSeq · MiSeq · NextSeq · iSeq
DNBSEQ-G400 · DNBSEQ-T7 · MGISEQ-2000
MinION · GridION · PromethION
Sequel II/IIe · Revio · Vega
Frequently Asked Questions
What data do I need to send you?
How do I transfer large sequencing files?
Do you work with non-human organisms?
Is my data confidential?
Can I request revisions?
Can you help write the methods section for my paper?
What if I just have a VCF and need interpretation, not raw data processing?
Do you offer academic / student discounts?
Send Us Your Data.
Get Results in Days.
Free consultation. Clear quote within 24 hours. No obligation. We'll tell you exactly what we'll deliver, when, and for how much.
Response Time
Within 24 hours, typically same day
Why researchers choose us :
- ✓ PhD founder reviews every deliverable — not a junior analyst
- ✓ 50–70% lower cost than Western bioinformatics CROs
- ✓ Publication-ready figures you can drop straight into your manuscript
- ✓ Full NDA, IP ownership, data deletion on request
- ✓ We write the methods section — you just copy-paste
Request NGS Analysis Quote
Need More Than NGS Analysis?
Explore our full bioinformatics service portfolio.
Genix.ai is an AI-powered clinical platform using NGS and imaging to detect biomarkers early, enabling clinicians to deliver cost-effective, personalized treatments for rare pediatric conditions, cancer care, and infectious diseases.
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