DE-kupl mergeTags is part of the DE-kupl package, and is a DE k-mers assembly procedure.
DE k-mers are assembled de novo in order to group k-mers that potentially overlap the same event (ie. all k-mer overlapping a new differential splice junction or SNV). To this aim, we developed our own procedure called “mergeTags”, which works as follows: first we try to merge k-mers having non-ambiguous k-1 prefix-suffix overlap. For example, given the set of k-mers : {ATG,TGA,TGC,CAT}, the following contigs are produced : contigs = {CATG, TGA, TGC}. We repeat this assembly step using assembled k-mers until no overlap is found. We then repeat the assembly process with