Statistics, Data Mining and Modeling

Source code for the book chapter about Statistics, Data Mining and Modeling:

M. Reboiro-Jato; D. Glez-Peña; H. López-Fernández. Statistics, Data Mining and Modeling. Chapter 5. Pags. 120-200. Processing Metabolomics and Proteomics Data with Open Software, A practical guide. Royal Society of Chemistry. ISBN: 978-1-78801-721-3, PDF eISBN: 978-1-78801-988-0, 2020, England. DOI: 10.1039/9781788019880-00120

R code

This repository includes all the neccessary R files to reproduce the examples in the book chapter:

• biomarker-discovery.R
• classification-case-study-load-cancer-fiedler.R
• classification-case-study.R
• data-functions.R
• distance-measures.R
• download-cancer.R
• hierarchical-clustering.R
• kmeans-clustering.R
• load-cancer.R
• load-maldiquant-cancer-fiedler.R
• load-maldiquant-species.R
• machine-learning-models.R
• multiple-sample-visualization-functions.R
• multiple-sample-visualization.R
• outlier-detection.R
• pca.R
• peak-rankings-functions.R
• peak-rankings.R
• roc.R
• som.R

Docker image

There is a Docker image available at our Docker Hub with R and all the required libraries to run these examples.

Download the image with docker pull singgroup/r-rsc-statistics-data-mining and run xhost + in the host machine before starting the container with:

docker run --rm -it -e DISPLAY=$DISPLAY -v /tmp/.X11-unix:/tmp/.X11-unix  -w "$(pwd)" -v "$(pwd):$(pwd)" singgroup/r-rsc-statistics-data-mining R