GitHub - TransBioInfoLab/coMethDMR_data (original) (raw)

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• README

coMethDMR_data

This repository contains utility data sets for additional examples in the vignettes of https://github.com/TransBioInfoLab/coMethDMR.

• scripts/ contains the R scripts necessary to create these data sets
• data/ contains the compressed data sets (in .RDS form)
  • We recently recalculated the EPIC regions using the 10b4 dataset. Please use EPIC_10b4_Gene_3_200.rds.

Necessary Packages and Data Sets

You will need the following packages:

• the Tidyverse
• our package coMethDMR
• Illumina EPIC annotation IlluminaHumanMethylationEPICanno.ilm10b2.hg19
• the parallel package
• IMA's 450k region-level annotation library (specifically the ISLANDSInd data set) from https://rforge.net/IMA/#sec-4