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Geneformer

Model card Files Files and versions

Geneformer / geneformer

3.04 MB

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20 contributors

History: 48 commits

Christina Theodoris

Rename loom tokenizer function and modify example notebook for adata.

4fdb850 over 2 years ago

__init__.py

558 Bytes
Add function to extract and plot cell embeddings over 2 years ago
collator_for_classification.py

29.8 kB
Subclass collator for cell classification almost 3 years ago
emb_extractor.py

17.6 kB
Fixed error with perturbing individual genes and updated ways to specify cell_states_to_model (#146) over 2 years ago
gene_median_dictionary.pkl
Detected Pickle imports (2)
- "numpy.dtype",
- "numpy.core.multiarray.scalar"
How to fix it?
941 kB
Add Geneformer tokenizer and updated model card over 3 years ago
gene_name_id_dict.pkl
Pickle imports
- No problematic imports detected
What is a pickle import?
1.12 MB
xet

Upload gene_name_id_dict.pkl (#14) almost 3 years ago
in_silico_perturber.py

63.7 kB
Remove print statement from PR over 2 years ago
in_silico_perturber_stats.py

34.7 kB
Fixed error with perturbing individual genes and updated ways to specify cell_states_to_model (#146) over 2 years ago
pretrainer.py

37 kB
Update pretrainer for transformers==4.28.0 almost 3 years ago
token_dictionary.pkl
Detected Pickle imports (2)
- "numpy.core.multiarray.scalar",
- "numpy.dtype"
How to fix it?
788 kB
Update token_dictionary.pkl about 3 years ago
tokenizer.py

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