Alternatives and similar repositories for enformer-pytorch

Users that are interested in enformer-pytorch are comparing it to the libraries listed below

• instadeepai / nucleotide-transformer
  Foundation Models for Genomics & Transcriptomics
  ☆802Updated this week
• HazyResearch / hyena-dna
  Official implementation for HyenaDNA, a long-range genomic foundation model built with Hyena
  ☆749Updated 8 months ago
• calico / basenji
  Sequential regulatory activity predictions with deep convolutional neural networks.
  ☆462Updated 8 months ago
• pinellolab / DNA-Diffusion
  🧬 Generative modeling of regulatory DNA sequences with diffusion probabilistic models 💨
  ☆454Updated 3 weeks ago
• jerryji1993 / DNABERT
  DNABERT: pre-trained Bidirectional Encoder Representations from Transformers model for DNA-language in genome
  ☆731Updated 6 months ago
• MAGICS-LAB / DNABERT_2
  [ICLR 2024] DNABERT-2: Efficient Foundation Model and Benchmark for Multi-Species Genome
  ☆448Updated 2 weeks ago
• Genentech / gReLU
  gReLU is a python library to train, interpret, and apply deep learning models to DNA sequences.
  ☆314Updated this week
• frederikkemarin / BEND
  Benchmarking DNA Language Models on Biologically Meaningful Tasks
  ☆128Updated last year
• songlab-cal / gpn
  Genomic Pre-trained Network
  ☆318Updated this week
• ML-Bioinfo-CEITEC / genomic_benchmarks
  Benchmarks for classification of genomic sequences
  ☆169Updated 5 months ago
• calico / borzoi
  RNA-seq prediction with deep convolutional neural networks.
  ☆220Updated 4 months ago
• google-deepmind / alphamissense
  ☆604Updated last year
• yiqunchen / GenePT
  ☆302Updated last year
• facebookresearch / CPA
  The Compositional Perturbation Autoencoder (CPA) is a deep generative framework to learn effects of perturbations at the single-cell lev…
  ☆183Updated 2 years ago
• nadavbra / protein_bert
  ☆569Updated 9 months ago
• TencentAILabHealthcare / scBERT
  ☆343Updated 2 years ago
• theislab / single-cell-transformer-papers
  ☆338Updated 7 months ago
• ml4bio / RNA-FM
  Nature Methods: RNA foundation model (together with RhoFold)
  ☆340Updated 7 months ago
• lucidrains / tf-bind-transformer
  A repository with exploration into using transformers to predict DNA ↔ transcription factor binding
  ☆88Updated 3 years ago
• sacdallago / bio_embeddings
  Get protein embeddings from protein sequences
  ☆505Updated 2 years ago
• snap-stanford / GEARS
  GEARS is a geometric deep learning model that predicts outcomes of novel multi-gene perturbations
  ☆325Updated 11 months ago
• Urinx / alphafold_pytorch
  An implementation of the DeepMind's AlphaFold based on PyTorch for research
  ☆401Updated 4 years ago
• gao-lab / GLUE
  Graph-linked unified embedding for single-cell multi-omics data integration
  ☆449Updated 2 months ago
• ArcInstitute / state
  State is a machine learning model that predicts cellular perturbation response across diverse contexts
  ☆495Updated 2 weeks ago
• aristoteleo / dynamo-release
  Inclusive model of expression dynamics with conventional or metabolic labeling based scRNA-seq / multiomics, vector field reconstruction …
  ☆481Updated 3 weeks ago
• OATML-Markslab / EVE
  Official repository for the paper "Large-scale clinical interpretation of genetic variants using evolutionary data and deep learning". Jo…
  ☆189Updated last year
• jmschrei / tangermeme
  Biological sequence analysis for the modern age.
  ☆260Updated last month
• biomap-research / scFoundation
  ☆384Updated last month
• lucidrains / protein-bert-pytorch
  Implementation of ProteinBERT in Pytorch
  ☆164Updated 4 years ago
• snap-stanford / UCE
  UCE is a zero-shot foundation model for single-cell gene expression data
  ☆236Updated 10 months ago