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ctheodoris
/
Geneformer

Fill-Mask
Transformers
Safetensors
bert
single-cell
genomics
Model card Files Files and versions
xet
Community
585

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")
  • Inference
  • Notebooks
  • Google Colab
  • Kaggle
Geneformer / examples
1.52 MB
Ctrl+K
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  • 20 contributors
History: 39 commits
Christina Theodoris
further emphasize different token dictionaries in examples
e2ee685 over 1 year ago
  • pretraining_new_model
    precommit formatting almost 2 years ago
  • cell_classification.ipynb
    106 kB
    further emphasize different token dictionaries in examples over 1 year ago
  • extract_and_plot_cell_embeddings.ipynb
    1.13 MB
    further emphasize different token dictionaries in examples over 1 year ago
  • gene_classification.ipynb
    180 kB
    further emphasize different token dictionaries in examples over 1 year ago
  • in_silico_perturbation.ipynb
    6.48 kB
    further emphasize different token dictionaries in examples over 1 year ago
  • multitask_cell_classification.ipynb
    13.8 kB
    Create multi-task_cell_classification.ipynb (#418) over 1 year ago
  • tokenizing_scRNAseq_data.ipynb
    4.53 kB
    further emphasize different token dictionaries in examples over 1 year ago