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Geneformer

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Geneformer / examples

15 contributors

History: 31 commits

Christina Theodoris

Add functions for extracting gene embeddings, move state_embs_dict outside isp, fix bugs in isp

2f25aea about 1 year ago

pretraining_new_model
Update links including unsorted example lengths file over 1 year ago
cell_classification.ipynb

96.1 kB

Add note to recommend tuning hyperparameters for downstream applications over 1 year ago
extract_and_plot_cell_embeddings.ipynb

1.13 MB

Add option to output embs as tensor about 1 year ago
gene_classification.ipynb

168 kB

Add note to recommend tuning hyperparameters for downstream applications over 1 year ago
hyperparam_optimiz_for_disease_classifier.py

7.84 kB

Config head node runtime via IP (#234) over 1 year ago
in_silico_perturbation.ipynb

5.06 kB

Add functions for extracting gene embeddings, move state_embs_dict outside isp, fix bugs in isp about 1 year ago
tokenizing_scRNAseq_data.ipynb

3.74 kB

anndata_tokenizer (#170) about 1 year ago