I have defined a custom fragment in Avogadro 1.2.0. Could I also define the linking position? I explain myself. Let’s assume this custom fragment is acetic acid and I want to add it to a long hydrocarbon chain, like 1-dodecanol. When combining these two fragments I can get either dodecylacetate (linking atom oxygen of acetic acid) or 14-hydroxytetradecanoic acid (linking atom alpha-carbon of acetic acid).
Ideally, I would like to define two acetic fragments, one which links through the alpha-carbon and another, through the acid oxygen. Is that possible in Avogadro?
Thanks for your help!