Project: MBpanel

Description:

There are the scripts for scientific article titled "Integrative analysis of gene expression and DNA methylation based on the previously existing one-class logistic regression machine learning approach identifies stemness features in medulloblastoma". The scripts are encoded using R. They can generate the result of figures and tables from the article.

Requirement:

R(https://www.r-project.org/, version >= 3.4) and R package as below:

• biomaRt
• caret
• cluster
• dplyr
• dplyr
• factoextra
• forestplot
• forestplot
• gdata
• gelnet
• GGally
• ggbeeswarm
• ggplot2
• ggplot2
• ggpubr
• ggpubr
• glmnet
• gridExtra
• limma
• NbClust
• openxlsx
• parallel
• survival
• survival
• survivalROC
• survivalROC
• survminer
• survminer
• survMisc
• synapseClient
• tableone

Usage:

Please put the supplementary_append.Rdata and the *.R scripts in the same directory and change the workdir of R in the same directory.

Run the scripts:

Rscript <the R script>

Or open the R software then enter on the command line:

load("<the R script>")