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Geneformer

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Geneformer / geneformer

3.07 MB

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20 contributors

History: 68 commits

hchen725's picture

Get the gene keys and gene list keys from the token dictionary instead of medians

faab0d7 verified about 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

29.5 kB
Update geneformer/emb_extractor.py (#303) about 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

38.7 kB
add load model for train and fix validate anchor gene error about 2 years ago
in_silico_perturber_stats.py

43 kB
Handle case of single gene del for isp modeling of gene embs about 2 years ago
perturber_utils.py

24.9 kB
add load model for train and fix validate anchor gene error about 2 years ago
pretrainer.py

37 kB
fix: incorrect condition control flow (#261) over 2 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

16.3 kB
Get the gene keys and gene list keys from the token dictionary instead of medians about 2 years ago