depends on the size of the box that the bees are in. if you can take the whole box home, it would be nice. you could put it over or under a super and let the bees move on their own. if you have to cut it out, i would not try to remove the bees first.
everyone has their own way of doing things, but this is what i usually do. 1st, i look for the brood comb in hopes of getting the queen right away. if you can find her and move her into your super, the rest is easy. if i don't see the queen, i start cutting out brood comb and putting it in frames, always watching for the queen. watch the comb with eggs and young larvae because that's probably close to where she'll be. once she is in the super, the other bees will start to move in with her.
chances are, your comb will be hanging from the top of the box. you may have to start from the outside of the hive and work toward the middle. the outside comb should be your honey comb and that you can throw in your bucket. when you reach brood, then do the above.
if your comb is hanging down from the top, and you can remove the top and hive intact, you may be able to set it over an empty super with a super and frames underneath. again, you would wait until the bees move down and then remove and clean up the comb.....however, the wait 'til they move method can take time and allow them to build messy comb in the mean time.
pictures of what you are dealing with would help.
if you have the option of leaving the super where the hive was until dark, you'll get more of the stragglers. you can then close up the entrance and take it home.