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README

Input files for this analysis can be obtained from zenodo.

The Snakefile in this directory contains all rules used to evaluate the HiC enrichment for longrange (TAD + HiC) and trans meQTL pairs. Can be executed using snakemake, e.g.:

snakemake --profiles profiles/default all_hic

The report.Rmd can be generated after running the snakemake workflow. The markdown was originally in a separate 'master-report' for the full meQTL project, and the parts relevant for the HiC enrichment have been extracted. Generate the report e.g. using:

R -e "rmarkdown::render('report.Rmd')"