If you have mapped volumes (I hope you do^^) you can either create the containers the same 8with same paths) in portainer or as other suggest it use docker-compose file/syntax for it. But keep in mind that when you rely on portainer, then keep backup of your configs.
As more advanced user I can tell you, that I use docker, docker-compose, docker swarm from cli and have portainer "only for the quick look". But this depends if you are cool with CLI or want to use a UI.
I use the normal image https://hub.docker.com/_/nextcloud/ and have that running paired with traefik as reverse proxy and no issues.