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ctheodoris
/
Geneformer
like
200
Fill-Mask
Transformers
Safetensors
ctheodoris/Genecorpus-30M
bert
Inference Endpoints
License:
apache-2.0
Model card
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446
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Geneformer
/
geneformer
14 contributors
History:
122 commits
ctheodoris
update pretrainer to not use distributed sampler (Trainer uses accelerate)
8140c51
verified
about 21 hours ago
gene_dictionaries_30m
Update geneformer/tokenizer.py (#415)
about 2 months ago
mtl
dictionaries from parent dir (#405)
2 months ago
__init__.py
1.22 kB
precommit formatting
3 months ago
classifier.py
64.7 kB
Update trainer output dir (#427)
about 1 month ago
classifier_utils.py
23.3 kB
precommit formatting
3 months ago
collator_for_classification.py
31.2 kB
Refactor: Convert mask_token_id, pad_token_id, and all_special_ids to properties (#395)
2 months ago
emb_extractor.py
32 kB
add check to ensure emb_label is None for getting state embs dict
16 days ago
ensembl_mapping_dict_gc95M.pkl
pickle
Pickle imports
No problematic imports detected
What is a pickle import?
3.96 MB
LFS
Add function for summing of Ensembl IDs (#377)
3 months ago
evaluation_utils.py
9.76 kB
move dict loading to function in eval utils
2 months ago
gene_median_dictionary_gc95M.pkl
pickle
Detected Pickle imports (2)
"numpy.core.multiarray.scalar"
,
"numpy.dtype"
How to fix it?
1.51 MB
LFS
Add function for summing of Ensembl IDs (#377)
3 months ago
gene_name_id_dict_gc95M.pkl
pickle
Pickle imports
No problematic imports detected
What is a pickle import?
2.04 MB
LFS
rename for consistency
3 months ago
in_silico_perturber.py
65.5 kB
allow model_type valid options to take params model_type : {"Pretrained", "GeneClassifier", "CellClassifier", "MTLCellClassifier", "MTLCellClassifier-Quantized"} (#390)
3 months ago
in_silico_perturber_stats.py
45.1 kB
update function for N_Detections for mixture_model without anchor_token
14 days ago
mtl_classifier.py
13.7 kB
edit docs formatting
2 months ago
perturber_utils.py
32.4 kB
CUDA kernels incompatible with standard PyTorch device movement with 4bit/8bit, necessitating device-specific handling (#416)
about 2 months ago
pretrainer.py
29.6 kB
update pretrainer to not use distributed sampler (Trainer uses accelerate)
about 21 hours ago
token_dictionary_gc95M.pkl
pickle
Pickle imports
No problematic imports detected
What is a pickle import?
426 kB
LFS
update with 12L and 20L i4096 gc95M models, multitask and quantiz code
3 months ago
tokenizer.py
28 kB
Update geneformer/tokenizer.py (#415)
about 2 months ago