RRBS data analysis using Bismark and methylkit

RRBS data analysis using Bismark and methylkit

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Once we have read in the cytosine report files with methRead(), how to generate a table/dataframe of beta values or equivalent for all samples as columns and CpG sites as rows? Is the percMethylation() function the correct function to use? Beta values I guess are from microarray, is percent-methylation the correct equivalent?


RRBS


methylkit


Bismark


WGBS

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