Use Cloudron with external web applications
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To ensure apps run well alongside each other and the system components can be safely updated by Cloudron releases, other apps have to be packaged in a certain way. Mostly this comes down to dockerize them with a few additional constraints put in place by Cloudron (for example all apps run on a read-only filesystem) You can read more about how to package apps at https://cloudron.io/developer/packaging/
If your apps are lamp based, then the lamp app in the appstore is usually sufficient to ensure they run without issues alongside each other.