I have a 5 columns bed file with Chr | Peak Start | Peak End | Unique ID | Score
I want to annotate this Bed file using HOMER.
However, and this seem logical to me, homer require a 6th column with the strand information.
I have seen some solutions on how adding a strand column with only + in it, however I am wondering if this makes sense to do this, as the annotation may not be the same depending on the strand.
So my question is, is there a way to add the correct strand information for each peaks, is there a peak calling setting for this (I used macs14, and I didn't found an option that seems to do this) ?