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Geneformer

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Geneformer / examples

1.49 MB

19 contributors

History: 27 commits

Christina Theodoris

Fix isp perturb_group dims, reformat cell states dict to keyed, add attn mask

c2679c4 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

Fix isp perturb_group dims, reformat cell states dict to keyed, add attn mask 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

Fix isp perturb_group dims, reformat cell states dict to keyed, add attn mask over 2 years ago
tokenizing_scRNAseq_data.ipynb

3.25 kB

Add instructions to convert gene annotations w/ Ensembl Biomart over 2 years ago