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Geneformer

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Geneformer / examples

1.49 MB

19 contributors

History: 29 commits

Christina Theodoris

Rename loom tokenizer function and modify example notebook for adata.

4fdb850 over 2 years ago

pretraining_new_model
Update links including unsorted example lengths file over 2 years ago
cell_classification.ipynb

96.1 kB

Add note to recommend tuning hyperparameters for downstream applications over 2 years ago
extract_and_plot_cell_embeddings.ipynb

1.13 MB

Fixed error with perturbing individual genes and updated ways to specify cell_states_to_model (#146) over 2 years ago
gene_classification.ipynb

168 kB

Add note to recommend tuning hyperparameters for downstream applications over 2 years ago
hyperparam_optimiz_for_disease_classifier.py

6.78 kB

Change list of individual IDs to set to ensure unique before subsetting into train/valid/test sets over 2 years ago
in_silico_perturbation.ipynb

3.65 kB

Fixed error with perturbing individual genes and updated ways to specify cell_states_to_model (#146) over 2 years ago
tokenizing_scRNAseq_data.ipynb

3.74 kB

Rename loom tokenizer function and modify example notebook for adata. over 2 years ago