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BioNeMo Framework
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    NVIDIA/bionemo-framework
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    NVIDIA/bionemo-framework
    • Home
    • User Guide
        • Hardware and Software Prerequisites
        • Access and Startup
        • Initialization Guide
        • Development
        • Training Models
        • NeMo2 Parallelism
        • Megatron Dataset Considerations
          • bionemo-core
          • bionemo-esm2
          • bionemo example model Overview
          • bionemo-fw
          • bionemo-geneformer
          • bionemo-geometric
          • bionemo-llm
          • Modular Co-Design (MoCo) Interpolants
          • bionemo-noodles
          • BioNemo-SCDL: Single Cell Data Loading for Scalable Training of Single Cell Foundation Models.
          • bionemo-size-aware-batching
          • bionemo-testing
          • bionemo-webdatamodule
        • Conftest
          • ESM-2 Fine-Tuning
          • ESM-2 Inference
          • Zero-Shot Protein Design Using ESM-2
          • ESM-2 Pretraining
          • Geneformer Cell Type Classification Benchmark
          • Building Generative Models for Continuous Data via Continuous Interpolants
          • Building Generative Models for Discrete Data via Discrete Interpolants
          • Optimal Transport Samplers Tutorial
          • Example notebook
        • Code Review
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          • Jupyter Notebook Support
          • MkDocs
        • Frequently Asked Questions
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    • Models
      • Geneformer
      • ESM 2
        • Pre-trained Checkpoints
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      • CELLxGENE
      • UniProt Dataset
    • API
          • Api
          • Data
            • Api
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            • Config
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          • Api
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            • Infer esm2
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          • Api
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              • Datamodule
              • Dataset
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            • Infer geneformer
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              • Distribution
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              • Logit normal
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              • Utils
            • Base interpolant
            • Batch augmentation
                • Continuous flow matching
                • Vdm
                  • Equivariant ot sampler
                  • Kabsch augmentation
                  • Ot sampler
                  • Ot types
                • Discrete flow matching
                • Mdlm
              • Utils
                • Ddpm
                • D3pm
            • Discrete noise schedules
            • Inference time schedules
            • Utils
              • Continuous noise transforms
              • Continuous snr transforms
              • Discrete noise schedules
          • Nvfaidx
            • Single cell row dataset
            • Row feature index
            • Single cell collection
            • Single cell memmap dataset
            • Convert h5ad to scdl
            • Async worker queue
            • Torch dataloader utils
          • Sampler
          • Utils
          • Callbacks
          • Lightning
          • Megatron dataset compatibility
          • Megatron parallel state utils
          • Testing callbacks
          • Torch
          • Utils
            • Esm2
            • Load
            • Resource
            • Mode
            • Stop and go
          • Datamodule
          • Utils

    SUMMARY

    • Model Overview
    • Pre-trained Checkpoints
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