YuYangyang's repositories

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annotated_deep_learning_paper_implementations

🧑‍🏫 60 Implementations/tutorials of deep learning papers with side-by-side notes 📝; including transformers (original, xl, switch, feedback, vit, ...), optimizers (adam, adabelief, sophia, ...), gans(cyclegan, stylegan2, ...), 🎮 reinforcement learning (ppo, dqn), capsnet, distillation, ... 🧠

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Applied_Data_Science_with_Python

Code and materials from "Applied Data Science with Python" Specialization by University of Michigan on Coursera.

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BI-BE-CS-183-2023

Introduction to Computational Biology and Bioinformatics Course at Caltech, 2023

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Capybara

Capybara: A computational tool to measure cell identity and fate transitions

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Coursera---Programming-for-Everybody-Getting-Started-with-Python-

this contains all the answers to the quizes and asssignments for "Programming for Everybody (Getting Started with Python)" on Coursera by the University of Michigan.

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D-CE

An effective landmark free and model free de novo 3D reconstruction method for single cell analysis.

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mi4p

Multiple Imputation for Proteomics

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ml-jupyter-notebook

Jupyterlab notebook in a GPU enabled docker container for machine learning and deep learning

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mlim

mlim: multiple imputation with automated machine learning

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mouse-organnogenesis

single-cell ATAC-seq and RNA-seq in mouse embryos

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omicverse

A python library for multi omics included bulk and single cell RNA-seq analysis.

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project-based-learning

Curated list of project-based tutorials

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R_Scripts

Routinely used R scripts in statistical analysis of proteomic experiment results with figure and plot generation

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realyuyangyang

Config files for my GitHub profile.

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scrnaseq

A single-cell RNAseq pipeline for 10X genomics data

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SHAPR_torch

SHAPR: Code for "Capturing Shape Information with Multi-Scale Topological Loss Terms for 3D Reconstruction"

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spateo-release

Spatiotemporal modeling of spatial transcriptomics

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SpatialSort

A spatially aware Bayesian clustering approach that allows for the incorporation of prior biological knowledge.

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