lucidrains / flash-genomics-modelLinks
My own attempt at a long context genomics model, leveraging recent advances in long context attention modeling (Flash Attention + other hierarchical methods)
☆53Updated last year
Alternatives and similar repositories for flash-genomics-model
Users that are interested in flash-genomics-model are comparing it to the libraries listed below
Sorting:
- JAX/Flax implementation of the Hyena Hierarchy☆34Updated 2 years ago
- An annotated implementation of the Hyena Hierarchy paper☆33Updated 2 years ago
- RITA is a family of autoregressive protein models, developed by LightOn in collaboration with the OATML group at Oxford and the Debora Ma…☆97Updated 2 years ago
- Implementation of Tranception, an attention network, paired with retrieval, that is SOTA for protein fitness prediction☆32Updated 3 years ago
- Implementation of the Triangle Multiplicative module, used in Alphafold2 as an efficient way to mix rows or columns of a 2d feature map, …☆32Updated 3 years ago
- Implementation of GateLoop Transformer in Pytorch and Jax☆89Updated last year
- Discovering Interpretable Features in Protein Language Models via Sparse Autoencoders☆181Updated 4 months ago
- Exploring an idea where one forgets about efficiency and carries out attention across each edge of the nodes (tokens)☆51Updated 3 months ago
- A repository with exploration into using transformers to predict DNA ↔ transcription factor binding☆85Updated 3 years ago
- Implementation of an Attention layer where each head can attend to more than just one token, using coordinate descent to pick topk☆46Updated last year
- Replication attempt for the Protein Folding Model described in https://www.biorxiv.org/content/10.1101/2021.08.02.454840v1☆37Updated 3 years ago
- Implementation of Denoising Diffusion for protein design, but using the new Equiformer (successor to SE3 Transformers) with some addition…☆57Updated 2 years ago
- ☆34Updated last year
- Standalone Product Key Memory module in Pytorch - for augmenting Transformer models☆80Updated 10 months ago
- Pytorch implementation of a simple way to enable (Stochastic) Frame Averaging for any network☆50Updated 11 months ago
- CUDA implementation of autoregressive linear attention, with all the latest research findings☆44Updated 2 years ago
- Implementation of Infini-Transformer in Pytorch☆111Updated 5 months ago
- Implementation and replication of ProGen, Language Modeling for Protein Generation, in Jax☆113Updated 3 years ago
- Implementation of the Kalman Filtering Attention proposed in "Kalman Filtering Attention for User Behavior Modeling in CTR Prediction"☆58Updated last year
- Ledidi turns any machine learning model into a biological sequence editor, allowing you to design sequences with desired properties.☆83Updated last week
- Some personal experiments around routing tokens to different autoregressive attention, akin to mixture-of-experts☆119Updated 8 months ago
- LayerNorm(SmallInit(Embedding)) in a Transformer to improve convergence☆60Updated 3 years ago
- Implementation of Perceiver AR, Deepmind's new long-context attention network based on Perceiver architecture, in Pytorch☆88Updated 2 years ago
- ResiDual: Transformer with Dual Residual Connections, https://arxiv.org/abs/2304.14802☆93Updated last year
- ☆61Updated last year
- The project proposal template for OpenBioML community projects.☆18Updated 2 years ago
- To be a next-generation DL-based phenotype prediction from genome mutations.☆19Updated 4 years ago
- Implementation of Gated State Spaces, from the paper "Long Range Language Modeling via Gated State Spaces", in Pytorch☆100Updated 2 years ago
- ☆34Updated last month
- some common Huggingface transformers in maximal update parametrization (µP)☆80Updated 3 years ago