Alternatives and similar repositories for DNA-xLSTM

Users that are interested in DNA-xLSTM are comparing it to the libraries listed below

• bowang-lab / Orthrus
  Orthrus is a mature RNA model for RNA property prediction. It uses a mamba encoder backbone, a variant of state-space models specifical…
  ☆86Updated last month
• johli / scrambler
  Interpretation by Deep Generative Masking for Biological Sequences
  ☆37Updated 4 years ago
• Genentech / iterative-perturb-seq
  Sequential Optimal Experimental Design of Perturbation Screens Guided by Multimodal Priors
  ☆42Updated last year
• OATML / EVE
  Official repository for the paper "Large-scale clinical interpretation of genetic variants using evolutionary data and deep learning". Jo…
  ☆67Updated 3 years ago
• eternagame / EternaFold
  Improving RNA structure prediction through multitask learning on diverse crowdsourced data.
  ☆65Updated last year
• Novartis / ChemBioMultimodalAutoencoders
  a package for streamlined multidomain data integration and translation based on cross-modal autoencoders architectures
  ☆29Updated 2 years ago
• mims-harvard / SPECTRA
  SPECTRA: Spectral framework for evaluation of biomedical AI models
  ☆41Updated 10 months ago
• valence-labs / TxPert
  A repository for reproducing experiments from the TxPert paper
  ☆25Updated 3 weeks ago
• mims-harvard / ProCyon
  ProCyon: A multimodal foundation model for protein phenotypes
  ☆54Updated 2 months ago
• autosome-ru / LegNet
  accurate prediction of promoter activity and variant effects from massive parallel reporter assays
  ☆43Updated 6 months ago
• Sanofi-Public / CodonBERT
  Repository for mRNA Paper and CodonBERT publication.
  ☆143Updated last year
• eternagame / draw_rna
  Draw RNA secondary structures in python.
  ☆49Updated 7 months ago
• jmschrei / ledidi
  Ledidi turns any machine learning model into a biological sequence editor, allowing you to design sequences with desired properties.
  ☆99Updated 7 months ago
• PaccMann / paccmann_predictor
  PyTorch implementation of bimodal neural networks for drug-cell (pharmarcogenomics) and drug-protein (proteochemometrics) interaction pre…
  ☆54Updated 5 months ago
• FunctionLab / tapioca
  a framework for predicting global protein-protein interaction networks from dynamic mass spec data
  ☆24Updated last year
• krishnanlab / obnb
  A Python toolkit for setting up benchmarking dataset using biomedical networks
  ☆22Updated last week
• chenkenbio / SpliceBERT
  Primary RNA sequence model
  ☆42Updated last year
• brianhie / evolocity
  Evolutionary velocity with protein language models
  ☆95Updated last month
• eternagame / DegScore
  Arnie-based DegScore tool.
  ☆27Updated 3 years ago
• chembl / tractability_pipeline_v2
  Pipeline for assessing the tractability of potential targets (starting from Gene IDs)
  ☆29Updated 11 months ago
• DennisGankin / species-aware-DNA-LM
  Species-aware DNA language modeling
  ☆18Updated 3 years ago
• albert-ying / MethylGPT
  This is the official codebase for methylGPT : a foundation model for the DNA methylome.
  ☆50Updated 5 months ago
• m42-health / biofm-eval
  Library to extract embeddings for DNA sequences using BioFM genomics foundation model
  ☆19Updated 5 months ago
• Doudna-lab / GARNET_DL
  ☆36Updated last year
• HannesStark / protein-localization
  Using Transformer protein embeddings with a linear attention mechanism to make SOTA de-novo predictions for the subcellular location of p…
  ☆74Updated 2 years ago
• dohlee / chromoformer
  The official code implementation for Chromoformer in PyTorch. (Lee et al., Nature Communications. 2022)
  ☆37Updated 2 years ago
• hgbrian / biocolabs
  a collection of colabs useful for molecular biology
  ☆32Updated last year
• sacdallago / biotrainer
  Biological prediction models made simple.
  ☆48Updated 2 weeks ago
• ihh / bilby
  Jax code for functional genomics ML
  ☆14Updated 10 months ago
• wukevin / tcr-bert
  Large language modeling applied to T-cell receptor (TCR) sequences.
  ☆58Updated 3 years ago