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ctheodoris
/
Geneformer
like
206
Fill-Mask
Transformers
Safetensors
ctheodoris/Genecorpus-30M
bert
single-cell
genomics
Inference Endpoints
License:
apache-2.0
Model card
Files
Files and versions
Community
461
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9151b3e
Geneformer
/
geneformer
15 contributors
History:
46 commits
davidjwen
Update geneformer/in_silico_perturber.py
9151b3e
over 1 year ago
__init__.py
Safe
558 Bytes
Add function to extract and plot cell embeddings
over 1 year ago
collator_for_classification.py
Safe
29.8 kB
Subclass collator for cell classification
over 1 year ago
emb_extractor.py
Safe
17.6 kB
Fixed error with perturbing individual genes and updated ways to specify cell_states_to_model (#146)
over 1 year ago
gene_median_dictionary.pkl
pickle
Detected Pickle imports (2)
"numpy.dtype"
,
"numpy.core.multiarray.scalar"
How to fix it?
941 kB
Add Geneformer tokenizer and updated model card
about 2 years ago
gene_name_id_dict.pkl
Safe
pickle
Pickle imports
No problematic imports detected
What is a pickle import?
1.12 MB
LFS
Upload gene_name_id_dict.pkl (#14)
over 1 year ago
in_silico_perturber.py
Safe
65.6 kB
Update geneformer/in_silico_perturber.py
over 1 year ago
in_silico_perturber_stats.py
Safe
34.8 kB
Re-update stats to handle case of empty alt_states
over 1 year ago
pretrainer.py
Safe
37 kB
Update pretrainer for transformers==4.28.0
over 1 year ago
token_dictionary.pkl
pickle
Detected Pickle imports (2)
"numpy.dtype"
,
"numpy.core.multiarray.scalar"
How to fix it?
788 kB
Update token_dictionary.pkl
over 1 year ago
tokenizer.py
Safe
9.32 kB
Add error for no files found and suppress loompy import warning
over 1 year ago