DeepDrop
open-source genomics · from €0.99 · arm64 ·
Drop your .BAM here
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.BAM — aligned reads for DeepVariant variant calling. Results in ~6 hours.
Max 120 GB per sample. Drop multiple BAM files for batch processing.
First open-source ARM64 port
DeepVariant on ARM64
INT8-quantized variant calling — submitted to the Journal of Open Source Software, validated across 5 cloud platforms, from €0.99 per genome.
0.9961
SNP F1
30× WGS validated
21 MB
INT8 Model
74% smaller
2.3×
Faster
vs standard precision
€1.49
Per Genome
FASTQ · budget tier
INT8 Quantization
74% compression
Post-training INT8 reduces InceptionV3 from 84 MB to 21 MB — near-zero accuracy loss. Dense convolutions are unusually quantization-friendly.
Parallel call_variants
2.5× speedup
Custom wrapper breaks the GEMM saturation ceiling at 16+ threads by splitting inference across independent processes.
5-Platform Validation
5 platforms
Validated on Graviton3, Graviton4, Oracle A1, Oracle A2, and Hetzner CAX41. Identical F1 scores across all platforms.
Accuracy Validation
GIAB HG003 chr20 · rtg vcfeval · INT8 ONNX
INT8 ≈ FP32
near-zero degradation
| Region | SNP F1 | INDEL F1 |
|---|---|---|
| Aggregate | 0.9978 | 0.9962 |
| Homopolymers | 0.9985 | 0.9967 |
| Simple Repeats | 0.9994 | 0.9967 |
| Seg. Duplications | 0.9802 | 0.9814 |
INT8 passes all GIAB stratification regions — homopolymers, tandem repeats, segmental duplications — with near-zero localized degradation.
Cost per Genome (FASTQ → VCF)
30× WGS, full pipeline
How It Works
Upload
BAM or FASTQ
Provision
ARM64 server
DeepVariant
INT8 ONNX
Download
VCF results
Server provisioned on-demand, pipeline runs automatically, server destroyed after. Data deleted after 7 days. EU-hosted. No cloud account needed.