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README.md

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README.md

Dependencies:

  • R/3.6.1
  • bedtools/2.27.1

Execution:

  1. Place .cov files from Bismark into "covs" folder
  2. Within the covs folder, run dmr_pipeline_binarize.sh to binarize the .cov files
  3. Within the covs folder, run dmr_pipeline_makeTSS.sh to make the RDS files with promoters info
  4. Copy the two RDS file to the "GLM_TSS" folder
  5. Run dmr_pipeline.sh to perform DMR between two groups