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ctheodoris
/
Geneformer

Fill-Mask
Transformers
Safetensors
bert
single-cell
genomics
Model card Files Files and versions
xet
Community
589

Instructions to use ctheodoris/Geneformer with libraries, inference providers, notebooks, and local apps. Follow these links to get started.

  • Libraries
  • Transformers

    How to use ctheodoris/Geneformer with Transformers:

    # Use a pipeline as a high-level helper
    from transformers import pipeline
    
    pipe = pipeline("fill-mask", model="ctheodoris/Geneformer")
    # Load model directly
    from transformers import AutoTokenizer, AutoModelForMaskedLM
    
    tokenizer = AutoTokenizer.from_pretrained("ctheodoris/Geneformer")
    model = AutoModelForMaskedLM.from_pretrained("ctheodoris/Geneformer", device_map="auto")
  • Inference
  • Notebooks
  • Google Colab
  • Kaggle
Geneformer
319 MB
Ctrl+K
Ctrl+K
  • 20 contributors
History: 92 commits
Christina Theodoris
Rename loom tokenizer function and modify example notebook for adata.
4fdb850 almost 3 years ago
  • examples
    Rename loom tokenizer function and modify example notebook for adata. almost 3 years ago
  • fine_tuned_models
    Add fine-tuned CellClassifier for cardiomyopathy about 3 years ago
  • geneformer-12L-30M
    Upload 12 layer Geneformer model about 3 years ago
  • geneformer
    Rename loom tokenizer function and modify example notebook for adata. almost 3 years ago
  • .gitattributes
    1.24 kB
    Add gene name : Ensembl ID dictionary about 3 years ago
  • .gitignore
    3.08 kB
    Add gitignore file about 3 years ago
  • MANIFEST.in
    127 Bytes
    Fixes to stats and adding gene dict attempt number 2 (#13) about 3 years ago
  • README.md
    6.19 kB
    Update README.md about 3 years ago
  • config.json
    565 Bytes
    upload Geneformer 6L-30M config over 4 years ago
  • pytorch_model.bin
    41.2 MB
    xet
    upload Geneformer 6L-30M over 4 years ago
  • setup.py
    637 Bytes
    Add setup.py almost 4 years ago
  • training_args.bin
    2.61 kB
    xet
    upload training args for Geneformer 6L-30M over 4 years ago