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Daniel & Gabby's Notebook
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Nature
ToolLLM: Facilitating Large Language Models to Master 16000+ Real-world APIs
ISMB
Nucleotide dependency analysis of DNA language models reveals genomic functional elements
MLSys
Cupcake: A Compression Scheduler for Scalable Communication-Efficient Distributed Training
ArXiv
Positional Embedding
RoFormer: Enhanced Transformer with Rotary Position Embedding
Train Short, Test Long: Attention with Linear Biases Enables Input Length Extrapolation
Contextual Position Encoding: Learning to Count What’s Important
LieRE: Generalizing Rotary Position Encodings
Gaussian Kernel-enhanced Rotary Position Embedding
RECOMB
BC-Design: A Biochemistry-Aware Framework for High-Precision Inverse Protein Folding
Courses at Yale
S&DS 665 Intermediate Machine Learning
Sparse Regression
Lasso Regression and Smoothing Methods
Discrete Data Graphs and Graph Neural Networks
Reinforcement Learning
Reinforcement Learning Policy Methods
Classical Sequence Models and Recurrent Neural Networks
Transformers and LLM Scaling
CB&B 634 Computational Methods in Informatics
Good enough practices in scientific computing
2024-08-29 Introduction to Informatics
2024-09-03 Standards for Scientific Computing
2024-09-10 Data Structures and Algorithms
2024-09-17 Big Data and Parallel Algorithms
2024-09-24 The Internet and APIs
2024-10-03 Data Exploration and Cleaning
2024-10-10 Numerical calculus
2024-10-22 Iterative Algorithms
CPSC 583 Deep Learning on Graph-Structured Data
The PageRank Citation Ranking
Representation Learning on Graphs: Methods and Applications
Inductive Representation Learning on Large Graphs
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Table of contents
Nucleotide dependency analysis of DNA language models reveals genomic functional elements