Be completely honest. Do you think Alphys is a bad person?
I do not. She kept saying she did horrible things, but what she really did was:
1: Do necessary research on Determination using comatose bodies
2: Revive monsters who end up accidentally melting into other monsters
3: Bringing back the families of most of the royal guard dogs
4: Bringback the dead mother of Snowy, whose father believed he could do nothing right parenting-wise
5: End up with every Amalgamate going on to live with their now extended families post-pacifist