https://github.com/adamtest24/languagemodels
Science Score: 13.0%
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Low similarity (4.1%) to scientific vocabulary
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- Host: GitHub
- Owner: AdamTest24
- Language: Jupyter Notebook
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Metadata Files
Readme
README.md
Language Model Material
Chapter 1 – Introduction to Antibody Language Models
- Introduction
- Requirements and Imports
- Functions
- Using antibody language models to fill in missing residues (one residue)
- Likelihood functions
- Tokenising and encoding sequences
- Encoding a dataset and exploring raw encodings
- AbLang
- AntiBERTy
- Using dimensionality reduction to explore encodings and compare between different models
- t-SNE
- PCA
- End of chapter exercise
Chapter 2 – Practical Examples of Uses of Antibody Language Models
- Introduction
- Functions
- Modelling antibodies with language model inputs
- IgFold
- Compare RMSD with abYmod
- Using encodings to classify sequences
- Classify Lambda and Kappa light chains
- Classify sequences by developability scores
- Using encodings to train linear models to predict important properties
- Train thermostability predictor
Chapter 3 - Understanding the Limitations of Antibody Langauage Models through Practical Examples
- Introduction
- Functions
- Filling in multiple missing residues with AbLang
- Generate sequence diversity with generative IgLM model
- Generate diversity with full sequence
- Generate diversity with prompt sequence
- End of chapter exercises
- End remarks
Owner
- Name: AdamTest24
- Login: AdamTest24
- Kind: organization
- Repositories: 1
- Profile: https://github.com/AdamTest24
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