Sequencing of DNA captured with a methyl-CpG binding domain reveals a similar hypermethylator phenotype in colon cancers and liver metastases.
This repository contains the code for the following paper:
- S Orjuela, M Menigatti, P Schraml, P Kambakamba, MD Robinson and G Marra: The DNA hypermethylation phenotype of colorectal cancer liver metastases resembles that of the primary colorectal cancers.
The structure of this repository is as follows:
Data/Metadata from samples analyzed and outputs fromcsawanalysis (.RDataobjects with table of identified DMRs).R/R scripts with code for DMR detection analysis, and code for plotting most of figures in paper.bash/shell scripts for pre-processing of raw data (FASTQ files).