Differentiating between mono-allelic sites vs missing sites

[skhalid7]

Hello

I wanted to ask if there was anyway in SINGER to differentiate mono-allelic (sites with no genetic variation) from missing sites. For example, ArgWeaver can mask out sites so that missing regions aren't added in the ARG inference but invariant sites are (and could be signs of selective sweeps).

Thanks,
Shareef

[YunDeng98]

Hi @skhalid7 Sorry we don't current provide support for masking missing sites. One thing to consider might be simply to delete these regions and change the coordinate system accordingly.