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This project modifies the Enformer architecture by replacing full self-attention with custom sparse attention (BigBird-style and hierarchical chunked attention) to reduce memory and computation on …
Chromatin interaction aware gene regulatory modeling with graph attention networks
A single CLAUDE.md file to improve Claude Code behavior, derived from Andrej Karpathy's observations on LLM coding pitfalls.
Analyses related to the Borzoi paper.
BioReason-Pro: Advancing Protein Function Prediction with Multimodal Biological Reasoning
Simple, unified interface to multiple Generative AI providers
BioReason: Incentivizing Multimodal Biological Reasoning within a DNA-LLM Model | NeurIPS '25
Biomni: a general-purpose biomedical AI agent
Fast and memory-efficient exact attention
Research code accompanying AlphaGenome
Trainable fast and memory-efficient sparse attention
🚀🚀 Efficient implementations of Native Sparse Attention
Bi-Directional Equivariant Long-Range DNA Sequence Modeling
A curated list of awesome Distributed Deep Learning resources.
A PyTorch native platform for training generative AI models
Official Repository for our NeurIPS2024 paper: Sample Selection via Contrastive Fragmentation for Noisy Label Regression
FlashRNA - An Efficient Model for Regulatory Genomics
Methods for efficiently and accurately fitting deep models on public phenotype data.
CORAL and CORN implementations for ordinal regression with deep neural networks.
Arc Virtual Cell Atlas
accurate prediction of promoter activity and variant effects from massive parallel reporter assays
Code for improving the performance of sequence-to-expression models for making individual-specific gene expression predictions by fine-tuning them on personal genome and transcriptome data.
[ICLR 2024] DNABERT-2: Efficient Foundation Model and Benchmark for Multi-Species Genome
This API provides programmatic access to the AlphaGenome model developed by Google DeepMind.
For fine-tuning Enformer using paired WGS & gene expression data