Bismark
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Getting strand information from/for bedGraph/coverage files
Is there a straightforward way to get strand information for the bedGraph or coverage files produced by Bismark, without generating a genome-wide cytosine report? I would like to avoid that for runtime reasons, as I don't need the genome-wide report for further analysis. I have been trying to figure out a way with bedtools by using the respective bam file, but I was wondering if there is a more simple solution to this.