license: apache-2.0
tags:
- generated_from_trainer
- machine_learning
- article_tag
- tag_generation
- ml_article_tag
- blog_tag_generation
- summarization
- tagging
metrics:
- rouge
model-index:
- name: t5-small-machine-articles-tag-generation
results: []
widget:
- text: >-
Paige, AI in pathology and genomics
Fundamentally transforming the diagnosis and treatment of cancer
Paige has raised $25M in total. We talked with Leo Grady, its CEO.
How would you describe Paige in a single tweet?
AI in pathology and genomics will fundamentally transform the diagnosis
and treatment of cancer.
How did it all start and why?
Paige was founded out of Memorial Sloan Kettering to bring technology that
was developed there to doctors and patients worldwide. For over a decade,
Thomas Fuchs and his colleagues have developed a new, powerful technology
for pathology. This technology can improve cancer diagnostics, driving
better patient care at lower cost. Paige is building clinical products
from this technology and extending the technology to the development of
new biomarkers for the biopharma industry.
What have you achieved so far?
TEAM: In the past year and a half, Paige has built a team with members
experienced in AI, entrepreneurship, design and commercialization of
clinical software.
PRODUCT: We have achieved FDA breakthrough designation for the first
product we plan to launch, a testament to the impact our technology will
have in this market.
CUSTOMERS: None yet, as we are working on CE and FDA regulatory
clearances. We are working with several biopharma companies.
What do you plan to achieve in the next 2 or 3 years?
Commercialization of multiple clinical products for pathologists, as well
as the development of novel biomarkers that can help speed up and better
inform the diagnosis and treatment selection for patients with cancer.
example_title: 'ML Article Example #1'
language:
- en
pipeline_tag: summarization
t5-small-machine-articles-tag-generation
Machine Learning model to generate Tags for Machine Learning related articles. This model is a fine-tuned version of t5-small fine-tuned on a refined version of 190k Medium Articles dataset for generating Machine Learning article tags using the article textual content as input. While usually formulated as a multi-label classification problem, this model deals with tag generation as a text2text generation task (inspiration and reference: fabiochiu/t5-base-tag-generation).
Finetuning Notebook Reference: Hugging face summarization notebook.
How to use the model
Installations
pip install transformers nltk
Code
from transformers import AutoTokenizer, AutoModelForSeq2SeqLM
import nltk
nltk.download('punkt')
tokenizer = AutoTokenizer.from_pretrained("nandakishormpai/t5-small-machine-articles-tag-generation")
model = AutoModelForSeq2SeqLM.from_pretrained("nandakishormpai/t5-small-machine-articles-tag-generation")
article_text = """
Paige, AI in pathology and genomics
Fundamentally transforming the diagnosis and treatment of cancer
Paige has raised $25M in total. We talked with Leo Grady, its CEO.
How would you describe Paige in a single tweet?
AI in pathology and genomics will fundamentally transform the diagnosis and treatment of cancer.
How did it all start and why?
Paige was founded out of Memorial Sloan Kettering to bring technology that was developed there to doctors and patients worldwide. For over a decade, Thomas Fuchs and his colleagues have developed a new, powerful technology for pathology. This technology can improve cancer diagnostics, driving better patient care at lower cost. Paige is building clinical products from this technology and extending the technology to the development of new biomarkers for the biopharma industry.
What have you achieved so far?
TEAM: In the past year and a half, Paige has built a team with members experienced in AI, entrepreneurship, design and commercialization of clinical software.
PRODUCT: We have achieved FDA breakthrough designation for the first product we plan to launch, a testament to the impact our technology will have in this market.
CUSTOMERS: None yet, as we are working on CE and FDA regulatory clearances. We are working with several biopharma companies.
What do you plan to achieve in the next 2 or 3 years?
Commercialization of multiple clinical products for pathologists, as well as the development of novel biomarkers that can help speed up and better inform the diagnosis and treatment selection for patients with cancer.
"""
inputs = tokenizer([article_text], max_length=1024, truncation=True, return_tensors="pt")
output = model.generate(**inputs, num_beams=8, do_sample=True, min_length=10,
max_length=128)
decoded_output = tokenizer.batch_decode(output, skip_special_tokens=True)[0]
tags = [ tag.strip() for tag in decoded_output.split(",")]
print(tags)
# ['Paige', 'AI in pathology and genomics', 'AI in pathology', 'genomics']
Dataset Preparation
Over the 190k article dataset from Kaggle, around 12k of them are Machine Learning based and the tags were pretty high level. Generating more specific tags would be of use while developing a system for Technical Blog Platforms. ML Articles were filtered out and around 1000 articles were sampled. GPT3 API was used to Tag those and then preprocessing on the generated tags was performed to enusre articles with 4 or 5 tags were selected for the final dataset that came around 940 articles.
Intended uses & limitations
This model can be used to generate Tags for Machine Learning articles primarily and can be used for other technical articles expecting a lesser accuracy and detail. The results might contain duplicate tags that must be handled in the postprocessing of results.
Results
It achieves the following results on the evaluation set:
- Loss: 1.8786
- Rouge1: 35.5143
- Rouge2: 18.6656
- Rougel: 32.7292
- Rougelsum: 32.6493
- Gen Len: 17.5745
Training and evaluation data
The dataset of over 940 articles was split across train : val : test as 80:10:10 ratio samples.
Training hyperparameters
The following hyperparameters were used during training:
- learning_rate: 2e-05
- train_batch_size: 16
- eval_batch_size: 16
- seed: 42
- optimizer: Adam with betas=(0.9,0.999) and epsilon=1e-08
- lr_scheduler_type: linear
- num_epochs: 10
- mixed_precision_training: Native AMP
Framework versions
- Transformers 4.26.1
- Pytorch 1.13.1+cu116
- Datasets 2.9.0
- Tokenizers 0.13.2