Is there an explanation for what the broad-cutoff means for broad peak calling for MACS. In the documentation for MACS they say it is a q-value cutoff for a broad peak region? I ask because in my result file, I still see peaks that have a -log10(qvalue) of less than the cutoff, so if my cutoff is 0.1 (the default), I see peaks that have a -log10(qvalue) of less than 1. Unless of course this is not what the broad-cutoff refers to? Thanks.
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The field of epigenetics has traditionally concentrated more on DNA and how changes like methylation and phosphorylation of histones impact gene expression and regulation. However, our increased understanding of RNA modifications and their importance in cellular processes has led to a rise in epitranscriptomics research. “Epitranscriptomics brings together the concepts of epigenetics and gene expression,” explained Adrien Leger, PhD, Principal Research Scientist...-
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