Currently, simForward.py handles the ligation point in a simplistic fashion, where overhangs are simply reattached, which by chance mimics meta3C. In the case of Hi-C, the end-filling used in biotinylation results in a duplication at the ligation junction.
We need to add this behaviour as a selectable option.
Currently, simForward.py handles the ligation point in a simplistic fashion, where overhangs are simply reattached, which by chance mimics meta3C. In the case of Hi-C, the end-filling used in biotinylation results in a duplication at the ligation junction.
We need to add this behaviour as a selectable option.