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Geneformer

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Geneformer / geneformer

11.5 MB

19 contributors

History: 168 commits

Christina Theodoris

default id_class_dict to None for gene classifiers

f45a6c7 17 days ago

gene_dictionaries_30m
Update geneformer/tokenizer.py (#415) over 1 year ago
mtl
move import wandb to conditional 7 months ago
__init__.py

1.65 kB

update with V2 models 6 months ago
classifier.py

67.4 kB

track metadata in predictions about 1 month ago
classifier_utils.py

24.4 kB

default id_class_dict to None for gene classifiers 17 days ago
collator_for_classification.py

31.7 kB

silence tensor copy warning 6 months ago
emb_extractor.py

35.4 kB

add emb extractor option for saving all gene embs about 1 month ago
ensembl_mapping_dict_gc104M.pkl
Pickle imports
- No problematic imports detected
What is a pickle import?
3.96 MB
xet

add V2 models 6 months ago
evaluation_utils.py

10.5 kB

track metadata in predictions about 1 month ago
gene_median_dictionary_gc104M.pkl
Detected Pickle imports (2)
- "numpy.core.multiarray.scalar",
- "numpy.dtype"
How to fix it?
1.51 MB
xet

add V2 models 6 months ago
gene_name_id_dict_gc104M.pkl
Pickle imports
- No problematic imports detected
What is a pickle import?
1.66 MB
xet

add V2 models 6 months ago
in_silico_perturber.py

67.5 kB

update V1 token dict usage to self attr 6 months ago
in_silico_perturber_stats.py

45.9 kB

add pickle suffix option to isp stats about 1 month ago
mtl_classifier.py

14.5 kB

fully qualified imports to resolve name-space conflicts (#532) 8 months ago
perturber_utils.py

32.5 kB

Fix TypeError in make_perturbation_batch_special (#567) about 1 month ago
pretrainer.py

29.5 kB

remove unused imports while no longer using distributed sampler about 1 year ago
token_dictionary_gc104M.pkl
Pickle imports
- No problematic imports detected
What is a pickle import?
426 kB
xet

add V2 models 6 months ago
tokenizer.py

34.7 kB

add empty tokenized_counts for loom to pass until keep_counts implemented 3 months ago