yurakuratov
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docs: update usage example
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README.md
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@@ -21,22 +21,46 @@ Paper: https://www.biorxiv.org/content/10.1101/2023.06.12.544594v1
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## Examples
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###
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```python
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from transformers import AutoTokenizer, AutoModel
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tokenizer = AutoTokenizer.from_pretrained('AIRI-Institute/gena-lm-bert-base-t2t')
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model = AutoModel.from_pretrained('AIRI-Institute/gena-lm-bert-base-t2t')
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```
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### How to load the model to fine-tune it on classification task
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```python
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from src.gena_lm.modeling_bert import BertForSequenceClassification
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from transformers import AutoTokenizer
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tokenizer = AutoTokenizer.from_pretrained('AIRI-Institute/gena-lm-bert-base-t2t')
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model = BertForSequenceClassification.from_pretrained('AIRI-Institute/gena-lm-bert-base-t2t')
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```
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## Model description
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GENA-LM (`gena-lm-bert-base-t2t`) model is trained in a masked language model (MLM) fashion, following the methods proposed in the BigBird paper by masking 15% of tokens. Model config for `gena-lm-bert-base-t2t` is similar to the bert-base:
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## Examples
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### How to load pre-trained model for Masked Language Modeling
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```python
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from transformers import AutoTokenizer, AutoModel
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tokenizer = AutoTokenizer.from_pretrained('AIRI-Institute/gena-lm-bert-base-t2t')
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model = AutoModel.from_pretrained('AIRI-Institute/gena-lm-bert-base-t2t', trust_remote_code=True)
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```
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### How to load pre-trained model to fine-tune it on classification task
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Get model class from GENA-LM repository:
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```bash
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git clone https://github.com/AIRI-Institute/GENA_LM.git
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```
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```python
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from GENA_LM.src.gena_lm.modeling_bert import BertForSequenceClassification
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from transformers import AutoTokenizer
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tokenizer = AutoTokenizer.from_pretrained('AIRI-Institute/gena-lm-bert-base-t2t')
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model = BertForSequenceClassification.from_pretrained('AIRI-Institute/gena-lm-bert-base-t2t')
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```
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or you can just download [modeling_bert.py](https://github.com/AIRI-Institute/GENA_LM/tree/main/src/gena_lm) and put it close to your code.
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OR you can get model class from HuggingFace AutoModel:
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```python
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from transformers import AutoTokenizer, AutoModel
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model = AutoModel.from_pretrained('AIRI-Institute/gena-lm-bert-base-t2t', trust_remote_code=True)
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gena_module_name = model.__class__.__module__
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print(gena_module_name)
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import importlib
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# available class names:
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# - BertModel, BertForPreTraining, BertForMaskedLM, BertForNextSentencePrediction,
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# - BertForSequenceClassification, BertForMultipleChoice, BertForTokenClassification,
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# - BertForQuestionAnswering
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# check https://huggingface.co/docs/transformers/model_doc/bert
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cls = getattr(importlib.import_module(gena_module_name), 'BertForSequenceClassification')
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print(cls)
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model = cls.from_pretrained('AIRI-Institute/gena-lm-bert-base-t2t', num_labels=2)
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```
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## Model description
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GENA-LM (`gena-lm-bert-base-t2t`) model is trained in a masked language model (MLM) fashion, following the methods proposed in the BigBird paper by masking 15% of tokens. Model config for `gena-lm-bert-base-t2t` is similar to the bert-base:
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