Christina Theodoris

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New activity in ctheodoris/Geneformer 2 days ago

Update geneformer/perturber_utils.py to be compatible with different versions of the datasets package.

1

#553 opened 2 days ago by

IchigoJiken

Update geneformer/evaluation_utils.py to be compatible with different versions of the datasets package.

1

#552 opened 2 days ago by

IchigoJiken

New activity in ctheodoris/Geneformer 5 days ago

'Column' object has no attribute 'to' error from evaluation_utils.py in Geneformer_tutorial.ipynb

10

#551 opened 16 days ago by

Fredrik0504

New activity in ctheodoris/Geneformer about 1 month ago

MTL and insilico perturbation

5

#549 opened about 1 month ago by

ZYSK-huggingface

label of dataset and prediction label mapping when using MTL

2

#548 opened about 1 month ago by

ZYSK-huggingface

PrecollatorForGeneAndCellClassification has no attribute save_pretrained

8

#528 opened 3 months ago by

zzbb2266

Having trouble with the pre-training process for the v1 and v2 versions of Geneformer.

4

#546 opened about 1 month ago by

Haorano

some issues about input data and cell type annotation

1

#545 opened about 1 month ago by

ZYSK-huggingface

questions on MTL fine-tuning and insilico

2

#547 opened about 1 month ago by

ZYSK-huggingface

Having trouble applying geneformer on my data

1

#544 opened about 1 month ago by

tomererez

Add example notebook for distributed multi-task cell classification

#543 opened about 1 month ago by

madhavanvvs

BertForSequenceClassification.forward() got an unexpected keyword argument 'length'

3

#540 opened about 1 month ago by

tusharagashe

...

1

#542 opened about 1 month ago by

vasudev1717

fix AssertionError: First token is not <cls> token value in extract_and_plot_cell_embeddings.ipynb

2

#541 opened about 1 month ago by

jackkuo

New activity in ctheodoris/Geneformer about 2 months ago

fix TypeError: TrainingArguments.__init__() got an unexpected keyword argument 'evaluation_strategy'

👍 2

1

#539 opened about 2 months ago by

jackkuo

add fallback task_type for LoraConfig to support different PEFT versions

#538 opened about 2 months ago by

madhavanvvs

best setting of num_train_epochs

1

#536 opened about 2 months ago by

ZYSK-huggingface

New activity in ctheodoris/Geneformer 2 months ago

Question about Geneformer Perturbation and Extended Data Fig. 2C/2E

5

#534 opened 3 months ago by

eastmancodes

error running the notebook: extract_and_plot_cell_embeddings

2

#535 opened 2 months ago by

tomererez

ERROR with AdamW

2

#511 opened 4 months ago by

DAARNIE