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Genomics & Sequence Modeling

Caduceus

Stanford University & Princeton University
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CategoryGenomics & Sequence Modeling
CompanyStanford University & Princeton University
PriceFree Open Source
StatusStatus not confirmed
AvailabilityAvailable on GitHub and Hugging Face
Last checked20/09/2026
FeaturesBi-directional state space (Mamba) architecture overcoming causal autoregressive limitations, Guaranteed reverse-complement (RC) equivariance essential for double-stranded DNA modeling, Sub-quadratic scaling allowing 131k base pair context on single standard GPUs, Superior performance on variant effect and chromatin accessibility benchmarks
Entry typeAI Model
Access modeOpen Source
AI roleEquivariant State Space Modeling
Input dataNot recorded
Output dataNot recorded
Licence conditionsApache 2.0
Commercial eligibilityOpen source release
Compute requirements1x GPU (>= 16GB VRAM)
ValidationNot recorded
TypeBi-directional Mamba genomic model
Intended useNot recorded
CompatibilityNot recorded
ManufacturerStanford University & Princeton University
Biological applicationLong-range gene regulation, promoter-enhancer mapping, and variant impact scoring
Research workflowGenomic DNA sequence -> predict regulatory activity with RC equivariance
Evidence levelPeer-reviewed research (ICML 2024)
Integration evidencehttps://github.com/kuleshov-group/caduceus
Laboratory handoffInforms non-coding variant prioritization for CRISPR functional genomics