lucidrains / enformer-pytorch
Implementation of Enformer, Deepmind's attention network for predicting gene expression, in Pytorch
☆460Updated 4 months ago
Alternatives and similar repositories for enformer-pytorch:
Users that are interested in enformer-pytorch are comparing it to the libraries listed below
- Sequential regulatory activity predictions with deep convolutional neural networks.☆425Updated 8 months ago
- 🧬 Nucleotide Transformer: Building and Evaluating Robust Foundation Models for Human Genomics☆570Updated last week
- gReLU is a python library to train, interpret, and apply deep learning models to DNA sequences.☆245Updated this week
- 🧬 Generative modeling of regulatory DNA sequences with diffusion probabilistic models 💨☆378Updated this week
- Genomic Pre-trained Network☆237Updated last week
- Official implementation for HyenaDNA, a long-range genomic foundation model built with Hyena☆637Updated 8 months ago
- [ICLR 2024] DNABERT-2: Efficient Foundation Model and Benchmark for Multi-Species Genome☆334Updated 2 months ago
- Benchmarks for classification of genomic sequences☆132Updated last year
- DNABERT: pre-trained Bidirectional Encoder Representations from Transformers model for DNA-language in genome☆631Updated 11 months ago
- GEARS is a geometric deep learning model that predicts outcomes of novel multi-gene perturbations☆227Updated 2 weeks ago
- A repository with exploration into using transformers to predict DNA ↔ transcription factor binding☆84Updated 2 years ago
- Get protein embeddings from protein sequences☆476Updated last year
- RNA-seq prediction with deep convolutional neural networks.☆122Updated 2 months ago
- Implementation of ProteinBERT in Pytorch☆155Updated 3 years ago
- ☆521Updated last year
- Biological sequence analysis for the modern age.☆207Updated 2 months ago
- ☆294Updated last week
- Official repository for the paper "Large-scale clinical interpretation of genetic variants using evolutionary data and deep learning". Jo…☆166Updated 11 months ago
- Toolkit to train base-resolution deep neural networks on functional genomics data and to interpret them☆150Updated 6 months ago
- Benchmarking DNA Language Models on Biologically Meaningful Tasks☆104Updated 3 months ago
- Nature Methods: RNA foundation model (together with RhoFold)☆243Updated 2 months ago
- Formalizing and benchmarking open problems in single-cell genomics☆326Updated last week
- ☆290Updated last year
- ☆544Updated 11 months ago
- Inclusive model of expression dynamics with conventional or metabolic labeling based scRNA-seq / multiomics, vector field reconstruction …☆437Updated last month
- A deep learning-based tool to identify splice variants☆420Updated 11 months ago
- DeepConsensus uses gap-aware sequence transformers to correct errors in Pacific Biosciences (PacBio) Circular Consensus Sequencing (CCS) …☆233Updated 4 months ago
- Deep networks for protein functional inference☆166Updated 3 months ago
- A generative latent variable model for biological sequence families.☆213Updated 2 years ago
- Benchmarking analysis of data integration tools☆332Updated last month