An index of my projects and tools. This document organizes repositories, gives short descriptions.
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Tool-Box — Utility scripts
Useful scripts for Python and R, plus Docker, Snakemake, and Git. -
Design-Pattern-Reference — Design pattern examples
Illustrated examples of Creational, Structural, and Behavioral design patterns implemented across C++, Java, JavaScript, PHP, Python, and R. -
NMFprofileR — R package: NMF + GO enrichment
An R package that performs Non-negative Matrix Factorization (NMF) and gene ontology (GO) enrichment on NMF basis genes. -
R_Shiny_App_TCGA_Subtype_KM_Plots — Interactive survival explorer
A Shiny app that lets users select TCGA molecular subtypes and compare Kaplan–Meier survival curves. -
openPIP — PPI browser / network visualizer
Web framework for browsing and visualizing protein–protein interaction networks.
- Bash_scripts — Bash utility scripts
- Canine_Lymphoma — Master’s project analysis - Analysis scripts from my Master’s degree project focusing on canine lymphoma RNA-seq data.
- GeneList-R — R package for gene-list.com
- GViz — Code for visualizing genomic regions
- ML — Machine learning examples and notebooks
- NMF — Examples of NMF on BRCA TCGA dataset
- Pharmaceuticals-Reference — Information about marketed pharmaceuticals, indications, and molecular structures
- REST-API-Reference — Example of implementing a REST API in Python
- Rosalind — Solutions to problems on rosalind.info
- scRNA-Seq — Examples of scRNA-Seq analysis with Seurat and Scanpy
- TCGA-Subtype-Reference — Reference summarizing descriptions of TCGA molecular subtypes
MIT / Apache 2.0 (miles [.] william [.] mee [@] gmail [.] com)