T2T Encode epigenetic reanalysis

These scripts will recapitulate the analysis performed for the reanalysis of Encode data using the chm13 reference genome.

Prerequisites:

• Snakemake
• Python3
• Conda
• Git

Running the analysis:

First, adjust values in the snakefile to reflect the appropriate specs for your system.

Second, run the snakefile with the --use-conda flag.

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Any questions should be directed to msauria@jhu.edu