Repositories List

An automatically updated list of my public repos and repos contributed to.

Research

• bcell - A framework for linear B-cell epitope prediction and classification. (ECML PKDD 2023)

• deep-vaccine - Predict multi-epitope vaccine subunit candidates using NLP.

• master-thesis - The code for my master’s degree project.

Tools

• py-cdhit - A Python package for CD-HIT, clustering protein or nucleotide sequences.

• auto-sphinx-page-action - GitHub action that creates website using Sphinx.

• phasty - A Python interface for PHAST (phylogenetic analysis with space/time models).

• config-argument-parser - A package to help automatically create command-line interface from configuration or code.

Featured Projects

• vae-mixin-pytorch - Variational autoencoders as mixins.

• complex_systems - A Python package for studying complex systems.

• 2048-ai-tk - 2048 AI in Python with GUI.

• genome_analysis - Genome analysis labs.

Others

• config-argument-parser-docs - Docs of config-argument-parser.

• repositories-list - A list of my public repos.

• n-body - N-body simulation with quadtree, OpenMP parallelized.

• docker-flask-redis-celery - Docker Compose template for web application.

Contributions

• scikit-learn/scikit-learn - scikit-learn: machine learning in Python

• pandas-dev/pandas - Flexible and powerful data analysis / manipulation library for Python, providing labeled data structures similar to R data.frame objects, statistical functions, and much more

• scipy/scipy - SciPy library main repository

• matplotlib/matplotlib - matplotlib: plotting with Python

• numpy/numpy - The fundamental package for scientific computing with Python.

• pytorch/pytorch - Tensors and Dynamic neural networks in Python with strong GPU acceleration

• pyg-team/pytorch_geometric - Graph Neural Network Library for PyTorch

• huggingface/transformers - 🤗 Transformers: State-of-the-art Machine Learning for Pytorch, TensorFlow, and JAX.

• shap/shap - A game theoretic approach to explain the output of any machine learning model.

• probml/pyprobml - Python code for “Probabilistic Machine learning” book by Kevin Murphy

• scverse/scanpy - Single-cell analysis in Python. Scales to >1M cells.