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Genomics Pipeline

174x

Faster than industry standard — on a laptop.
Whole-genome analysis — alignment, variant calling, annotation — at speeds that redefine clinical timelines. On cloud infrastructure, the numbers get absurd.

Benchmark

The standard pipeline takes hours.
We take minutes.

Pipeline Whole Genome (30×) Hardware Accuracy
BWA-MEM + GATK ~24 hrs Standard server Gold standard
DRAGEN (Illumina) ~22 min Custom FPGA ($$$) DRAGEN-calibrated
Google DeepVariant ~2–6 hrs GPU / Cloud TPU High (CNN-based)
22Rx / LoNC ~8 min Commodity CPU Validated against GIAB
Performance

Numbers that change
what's clinically possible.

174×
Faster than BWA-MEM + GATK
2.7×
Faster than DRAGEN (no FPGA needed)
$0
Specialized hardware cost

Illumina's DRAGEN requires custom FPGA hardware costing hundreds of thousands of dollars. We match or beat it on commodity CPUs using lock-free parallel architecture — the same 44s.io infrastructure that powers every other 22Rx pipeline.

Full Pipeline

Not just alignment.
The entire workflow.

01
Read Alignment
Lock-free parallel indexing maps reads to reference genome. Streaming architecture — constant memory regardless of genome size.
02
Variant Calling
LoNC-guided variant detection identifies SNPs, indels, and structural variants with physics-based confidence scoring.
03
Annotation
Parallel annotation against ClinVar, gnomAD, and functional databases. Clinical-grade interpretation in seconds.
04
Report Generation
Clinical-ready reports with pharmacogenomic calls, ancestry inference, and risk scoring — from FASTQ to finished in minutes.
Why It Matters

Speed enables things
that were previously impossible.

Emergency room genomics minutes not days
Neonatal ICU screening critical window
Pandemic surveillance real-time
Population-scale screening millions of genomes
Field-deployable sequencing no data center
Tumor profiling during surgery intraoperative

When a whole genome goes from a 24-hour process to 8 minutes, it stops being a lab test and becomes a vital sign. Newborns in the NICU. Patients in the ER. Outbreaks crossing borders. The constraint was never the sequencer — it was the compute. That constraint is gone.

At Scale

44s.io projection:
full genome in under 2 minutes.

On 128-core cloud infrastructure running 44s.io's lock-free architecture, projected whole-genome analysis drops below 2 minutes — alignment through annotation. Enough to run a national screening program from a single rack.