All Competitors

Every biological foundation model, evaluated and ranked by the bio.rodeo team

Showing 124 of 38 filtered models

  • GPFlow

    University of Illinois Urbana-ChampaignJuly 10, 2026flow_matchinggenerativemotif_scaffolding+4

    Variable-length generative protein design across structure, sequence, motif scaffolding, and peptide co-design via a generalized Poisson flow.

    Protein
    18Openness
  • Navigo

    12
    Chinese University of Hong Kong +1 otherJune 24, 2026cell_fate_engineeringflow_matchinggene_regulatory_network_inference+6

    Generative framework that learns a developmental vector field from scRNA-seq snapshots, coupling flow matching with molecular RNA kinetics.

    Single-cellRNA
    44Openness
  • VelocityFM

    University of Colombo School of Computing +1 otherJune 7, 2026conformational_samplingflow_matchinggenerative+4

    Generative protein-dynamics model that predicts short molecular dynamics trajectories with rectified flow matching over residue frames and torsions.

    Protein
    21Openness
  • FlowTransOP

    MIT +2 othersMay 27, 2026autoencodercross_domain_translationcross_species+7

    Flow-matching framework that translates omics signatures across biological domains, such as mouse to human transcriptomics, without paired samples.

    Single-cell
    87Openness
  • Griffith University +2 othersMay 21, 2026flow_matchinggenerative_modelprotein_design+5

    Dirichlet flow-matching model for protein design that generates family-aware sequences from ancestral-reconstruction priors, not random noise.

    Protein
    64Openness
  • DCFold

    2
    Tsinghua UniversityMay 18, 2026binder_designdiffusionflow_matching+2

    Protein structure prediction and binder design in a single generative step, replacing AlphaFold3's iterative diffusion sampling with one forward pass.

    Protein
    16Openness
  • Phoenix

    Helmholtz Munich +1 otherApril 29, 2026cell_type_annotationflow_matchingfoundation_model+6

    Virtual spatial transcriptomics foundation model predicting pan-cancer, spatially-resolved single-cell gene expression from H&E histology slides.

    PathologySpatial omics
    8Openness
  • AF2Dock

    151
    Johns Hopkins University +1 otherApril 24, 2026antibodyflow_matchinggenerative+5

    Protein-protein docking model adapting AlphaFold-Multimer with a docking module and flow-matching training to assemble subunits without MSAs.

    Protein
    77Openness
  • PI-Mamba

    University of Illinois Urbana-ChampaignMarch 17, 2026de_novo_designflow_matchinggenerative+4

    Protein backbone design model pairing flow matching with a Mamba state-space backbone, generating long proteins in linear time with exact geometry.

    Protein
    23Openness
  • SCALE

    Shanghai AI LaboratoryMarch 17, 2026flow_matchingfoundation_modelgenerative+4

    Virtual cell foundation model predicting single-cell responses to genetic, chemical, and cytokine perturbations with conditional flow matching.

    Single-cell
    19Openness
  • NVIDIAMarch 16, 2026all_atomde_novo_designflow_matching+6

    Flow-matching generative model for de novo atomistic protein binder design against protein and small-molecule targets, including carbohydrate binders.

    Protein
    68Openness
  • EvoFlows

    2
    CradleMarch 12, 2026antibodyflow_matchinggenerative+5

    Edit-based flow-matching model that proposes protein variants by learning insertions, deletions, and substitutions on a template sequence.

    Protein
    21Openness
  • ProtNHF

    Oak Ridge National LaboratoryMarch 6, 2026de_novo_designflow_matchinggenerative+4

    Neural Hamiltonian flow for protein sequence generation with inference-time control over composition and net charge via analytical bias potentials.

    Protein
    64Openness
  • RigidSSL

    201
    Chinese University of Hong KongMarch 2, 2026conformational_ensemble_generationflow_matchinggenerative+5

    Self-supervised SE(3) geometric pretraining for protein backbone generators, improving designability, motif scaffolding, and conformational ensembles.

    Protein
    73Openness
  • ProtFlow

    2
    Zhejiang UniversityFebruary 17, 2026antimicrobial_peptidesde_novo_designflow_matching+4

    Flow-matching generative model for peptide sequence design that learns the protein semantic distribution, fine-tuned for antimicrobial peptides.

    Protein
    16Openness
  • DERIVE

    Guangzhou National LaboratoryFebruary 12, 2026flow_matchingfoundation_modelgenerative+5

    Multimodal generative model predicting viral antigenic change zero-shot from disentangled evolutionary, physicochemical, and structural signals.

    Protein
    16Openness
  • scDFM

    447
    Westlake UniversityFebruary 6, 2026flow_matchinggene_expressiongenerative+4

    Single-cell perturbation prediction model using conditional flow matching to map control cells to perturbed expression distributions.

    Single-cell
    54Openness
  • CHASE

    ETH Zurich +1 otherFebruary 2, 2026autoencoderdirected_evolutionfitness_optimization+4

    Latent flow-matching method that repurposes protein language model embeddings to generate high-fitness protein variants without predictor guidance.

    Protein
    11Openness
  • MoLF

    National Center for Tumor Diseases DresdenFebruary 2, 2026flow_matchinggene_expressiongenerative+5

    Pan-cancer model predicting spatial gene expression from H&E histology using conditional flow matching with a mixture-of-experts velocity field.

    PathologySpatial omics
    9Openness
  • La-Proteina

    304142
    NVIDIAJanuary 23, 2026all_atomde_novo_designflow_matching+6

    Partially latent flow-matching model for de novo protein design, jointly generating sequence and all-atom structure for proteins up to 800 residues.

    Protein
    69Openness
  • PPIFlow

    4
    Changping LaboratoryJanuary 22, 2026antibodyde_novo_designflow_matching+5

    Flow-matching generative model for de novo protein binder backbone design, built on a Pairformer architecture with in silico interface maturation.

    Protein
    4Openness
  • SurfFlow

    6
    Stanford UniversityJanuary 8, 2026de_novo_designflow_matchinggenerative+5

    Flow-matching model for therapeutic peptide design that co-designs sequence, structure, and molecular surface to disrupt protein-protein interactions.

    ProteinSmall molecule
    18Openness
  • OMTRA

    68
    University of Pittsburgh +1 otherDecember 4, 2025conformer_generationde_novo_designdrug_discovery+8

    Structure-based drug design model that unifies de novo generation, docking, conformer generation, and pharmacophore conditioning via flow matching.

    Small moleculeProtein
    72Openness
  • RFdiffusion2

    439114
    Institute for Protein DesignDecember 3, 2025de_novo_designdiffusionenzyme_design+3

    Atom-level diffusion model for de novo enzyme design that scaffolds arbitrary active-site geometries without specifying catalytic residue positions.

    Protein
    69Openness