Alternatives and similar repositories for AIDO

Users that are interested in AIDO are comparing it to the libraries listed below

• Sanofi-Public / CodonBERT
  Repository for mRNA Paper and CodonBERT publication.
  ☆139Updated last year
• genbio-ai / ModelGenerator
  AIDO.ModelGenerator is a software stack powering the development of an AI-driven Digital Organism (AIDO) by enabling researchers to adapt…
  ☆100Updated this week
• prescient-design / lobster
  Lbster: Language models for Biological Sequence Transformation and Evolutionary Representation
  ☆141Updated this week
• HannesStark / protein-localization
  Using Transformer protein embeddings with a linear attention mechanism to make SOTA de-novo predictions for the subcellular location of p…
  ☆75Updated 2 years ago
• mims-harvard / PINNACLE
  Contextual AI models for single-cell protein biology
  ☆96Updated 10 months ago
• mims-harvard / ProCyon
  ProCyon: A multimodal foundation model for protein phenotypes
  ☆54Updated last month
• OpenBioML / protein-lm-scaling
  ☆59Updated last year
• 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…
  ☆85Updated 3 weeks ago
• snap-stanford / BioDiscoveryAgent
  BioDiscoveryAgent is an LLM-based AI agent for closed-loop design of genetic perturbation experiments
  ☆93Updated 6 months ago
• BorgwardtLab / proteinshake
  Protein structure datasets for machine learning.
  ☆113Updated 8 months ago
• instadeepai / InstaNovo
  De novo peptide sequencing with InstaNovo: Accurate, database-free peptide identification for large scale proteomics experiments
  ☆109Updated 3 weeks ago
• chenkenbio / SpliceBERT
  Primary RNA sequence model
  ☆41Updated last year
• ml4bio / RhoFold
  Nature Methods: RhoFold+, Accurate RNA 3D structure prediction using a language model-based deep learning approach
  ☆197Updated 7 months ago
• lbcb-sci / RiNALMo
  RiboNucleic Acid (RNA) Language Model
  ☆148Updated 3 months ago
• chandar-lab / AMPLIFY
  ☆118Updated 5 months ago
• etowahadams / interprot
  [ICML 25] We train and evaluate SAEs to identify interpretable features in pLMs and show their potential for scientific discovery.
  ☆122Updated this week
• ramanathanlab / genslm
  GenSLMs: Genome-scale language models reveal SARS-CoV-2 evolutionary dynamics
  ☆138Updated 2 months ago
• wukevin / proteinclip
  Contrastive learning harmonizing protein language models and natural language models
  ☆40Updated last year
• Future-House / LAB-Bench
  Evaluation dataset for AI systems intended to benchmark capabilities foundational to scientific research in biology
  ☆95Updated 3 months ago
• morrislab / mRNABench
  Collection of mRNA benchmarks
  ☆45Updated this week
• Bitbol-Lab / ProtMamba-ssm
  ProtMamba: a homology-aware but alignment-free protein state space model
  ☆82Updated 7 months ago
• frederikkemarin / BEND
  Benchmarking DNA Language Models on Biologically Meaningful Tasks
  ☆127Updated last year
• Adibvafa / CodonTransformer
  CodonTransformer (1M+ Downloads); The tool for codon optimization, optimizing DNA for protein expression
  ☆191Updated 5 months ago
• oxpig / CaLM
  Protein language model trained on coding DNA
  ☆52Updated last year
• sacdallago / biotrainer
  Biological prediction models made simple.
  ☆47Updated last month
• debbiemarkslab / SeqDesign
  Protein design and variant prediction using autoregressive generative models
  ☆117Updated last year
• martinez-zacharya / TRILL
  Sandbox for Deep-Learning based Computational Protein Design
  ☆120Updated 3 weeks ago
• biomap-research / xTrimoMultimer
  ☆77Updated 3 years ago
• OpenProteinAI / PoET
  Inference code for PoET: A generative model of protein families as sequences-of-sequences
  ☆88Updated last year
• broadinstitute / EmmaEmb
  ☆16Updated 4 months ago