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Geneformer

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Geneformer / geneformer

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15 contributors

History: 50 commits

ctheodoris's picture

anndata_tokenizer (#170)

4302f48 over 1 year ago

__init__.py

558 Bytes

Add function to extract and plot cell embeddings almost 2 years ago
collator_for_classification.py

29.8 kB

Subclass collator for cell classification almost 2 years ago
emb_extractor.py

19.6 kB

Add memory-efficient method for computing emb summary statistics over 1 year 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 2 years ago
gene_name_id_dict.pkl
Pickle imports
- No problematic imports detected
What is a pickle import?
1.12 MB
LFS

Upload gene_name_id_dict.pkl (#14) almost 2 years ago
in_silico_perturber.py

65.9 kB

Fixed bugs related to overexpressing genes (#229) over 1 year ago
in_silico_perturber_stats.py

34.8 kB

Re-update stats to handle case of empty alt_states almost 2 years ago
pretrainer.py

37 kB

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

Update token_dictionary.pkl about 2 years ago
tokenizer.py

12.8 kB

anndata_tokenizer (#170) over 1 year ago