JacobKMcPherson
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Lists (26)
Academic Programming 📝
Reading, writing, citing in code45 repositories
AWS 🌥
26 repositories
C++
6 repositories
Cryo-EM
electron cryogenic microscopy3 repositories
Docker 🐳
9 repositories
Genomics
Adapter trimming, quality-control, assembly, annotation, WGS, phylogenetics, etc.33 repositories
Go
3 repositories
Julia 🟣🔴🟢
27 repositories
LaTeX
1 repository
Machine & Deep Learning 🧠
92 repositories
🔬🔭 McPherson Lab Tools
20 repositories
Microbiome 🐛
metagenomics, microbial community profiling, etc.30 repositories
Molecular docking 💊
8 repositories
Molecular Dynamics (MD) and conformational ensembles
cryo-EM ensemble dynamics, time-resolved x-ray crystallography, alphafold2 heterogenous reconstruction, etc.10 repositories
One list to rule them all
3 repositories
Protein Folding
AlphaFold, OpenFold, ColabFold, etc.9 repositories
🐍 Python
109 repositories
R 🏴☠️
64 repositories
Rust 🏭
24 repositories
Scientific programming
97 repositories
SQL
7 repositories
Statistical programming
28 repositories
Structural Biology
8 repositories
Transcriptomics
RNA sequencing, single-cell RNA sequencing12 repositories
Virology 🦠
3 repositories
Website Development
7 repositories
Starred repositories
Get up and running with Llama 3.3, DeepSeek-R1, Phi-4, Gemma 2, and other large language models.
A pandoc LaTeX template to convert markdown files to PDF or LaTeX.
Graphical diagnostics for pharmacometric models
A curated collection of links for economists
This repository hosts the code behind the online book, Coding for Economists.
A curated list of awesome personal websites
A curated list of awesome actions to use on GitHub
Introduction to Machine Learning Systems
A complete alternative for Overleaf with VSCode + Web + Git Integration + Copilot + Grammar & Spell Checker + Live Collaboration Support. Based on GitHub Codespace and Dev container.
AI orchestration framework to build customizable, production-ready LLM applications. Connect components (models, vector DBs, file converters) to pipelines or agents that can interact with your data…
Implementation of DiffDock: Diffusion Steps, Twists, and Turns for Molecular Docking
Easily generate information-rich, publication-quality tables from R
MGnify genome analysis pipeline
Amazon Q, CodeCatalyst, Local Lambda debug, SAM/CFN syntax, ECS Terminal, AWS resources
📄 Awesome CV is LaTeX template for your outstanding job application
🌊 Julia software for fast, friendly, flexible, ocean-flavored fluid dynamics on CPUs and GPUs
Positron, a next-generation data science IDE
Speech-to-text, text-to-speech, speaker diarization, and VAD using next-gen Kaldi with onnxruntime without Internet connection. Support embedded systems, Android, iOS, HarmonyOS, Raspberry Pi, RISC…
MolModa provides a secure, accessible environment where users can perform molecular docking entirely in their web browsers.
My progress in programming in Julia for Molecular Dynamics (a subject in the University)
