The repo analyzes DNA methylation in Adipocyte Tissues for Crohn's Disease, along with demonstrating the usage of permutation tests and parallel computing.
- DNA_Crohn.R: The script of analysis.
- DNA_Crohn.Rmd, results.pdf: Files producing the results.
Data can be downloaded using the command line.
Details of the data and experiment can be found on the Gene Expression Omnibus website.
wget -O - ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE138nnn/GSE138311/matrix/GSE138311_series_matrix.txt.gz | gunzip -c > matrix.txt
To run the R script, the following packages should be pre-installed in the IDE.
install.packages('tidyverse')
install.packages('data.table')
install.packages('parallel')
install.packages('future')
The repo is a revised work of the course Stats506 Computational Methods and Tools in Statistics taught by Dr. Henderson.